hyphy (2.5.39+dfsg-1) unstable; urgency=medium

  [ Andreas Tille ]
  * Proper filename for upstream tarball

  [ Étienne Mollier ]
  * New upstream version
  * Standards-Version: 4.6.1 (routine-update)

 -- Étienne Mollier <emollier@debian.org>  Tue, 31 May 2022 19:37:50 +0200

hyphy (2.5.38+dfsg-1) unstable; urgency=medium

  * New upstream version

 -- Andreas Tille <tille@debian.org>  Mon, 02 May 2022 12:18:35 +0200

hyphy (2.5.36+dfsg-1) unstable; urgency=medium

  * New upstream version

 -- Étienne Mollier <emollier@debian.org>  Fri, 11 Feb 2022 13:35:31 +0100

hyphy (2.5.33+dfsg-1) unstable; urgency=medium

  * New upstream version
  * Standards-Version: 4.6.0 (routine-update)

 -- Nilesh Patra <nilesh@debian.org>  Tue, 19 Oct 2021 10:07:52 +0000

hyphy (2.5.32+dfsg-1) unstable; urgency=medium

  * New upstream version 2.5.32+dfsg
  * Refresh d/p/use_debian_sqlite.patch, do not impose ZLIB
    changes on the same patch so as to avoid confusion
  * d/p/set-zlib-after-setting-default-libs.patch: Check for existence
    of ZLIB *after* DEFAULT_LIBRARIES have been set

 -- Nilesh Patra <nilesh@debian.org>  Wed, 25 Aug 2021 19:44:43 +0530

hyphy (2.5.31+dfsg-1) unstable; urgency=medium

  [ Michael R. Crusoe ]
  * Removed spelling patch, it was merged upstream

  [ Étienne Mollier ]
  * Remove d/*.maintscriptsL: these have been brought in
    the earlier release of hyphy 2.5.28+dfsg-3
  * d/control: update uploader address
  * d/watch: fix broken link to github

  [ Nilesh Patra ]
  * d/watch: Fix watch regex
  * New upstream version 2.5.31+dfsg
  * d/p/*.patch: Refresh patches
  * d/p/use_debian_sqlite.patch: Check for existence of
    ZLIB *after* DEFAULT_LIBRARIES have been set
  * Fix copyright

 -- Nilesh Patra <nilesh@debian.org>  Sun, 15 Aug 2021 19:06:23 +0530

hyphy (2.5.28+dfsg-3) unstable; urgency=medium

  * d/*.maintscript: handle symbolic link removal in hyphy 2.5.18+dfsg-1.
    Closes: #985284

 -- Étienne Mollier <etienne.mollier@mailoo.org>  Tue, 16 Mar 2021 21:52:00 +0100

hyphy (2.5.28+dfsg-2) unstable; urgency=medium

  * Team upload.
  * debian/rules: set LC_ALL to fix groff warnings in the manpages
  * debian/patches/spelling: fix some typos
  * debian/rules: delete erroneous rpath for the MPI binaries
  * debian/rules: improve the clean target

 -- Michael R. Crusoe <crusoe@debian.org>  Sat, 20 Feb 2021 10:57:19 +0100

hyphy (2.5.28+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version
  * debian/tests/run-unit-tests: don't skip four tests that are now passing

 -- Michael R. Crusoe <crusoe@debian.org>  Fri, 19 Feb 2021 17:15:31 +0100

hyphy (2.5.27+dfsg-4) unstable; urgency=medium

  * Team upload.
  * Fix arch independent build issue which cause the amd64 autopkgtests to
    fail.
  * On amd64, run the build-time tests the SIMD varients that are supported by
    the build-time CPU.

 -- Michael R. Crusoe <crusoe@debian.org>  Sun, 31 Jan 2021 11:05:20 +0100

hyphy (2.5.27+dfsg-3) unstable; urgency=medium

  * Team upload.
  * Fix arch independent build.
  * debian/control: mark hyphy-common as Multi-Arch: foreign

 -- Michael R. Crusoe <crusoe@debian.org>  Sat, 30 Jan 2021 12:52:56 +0100

hyphy (2.5.27+dfsg-2) unstable; urgency=medium

  * Team upload.
  * Refresh patches.
  * debian/rules: build avx and sse3 version for amd64

 -- Michael R. Crusoe <crusoe@debian.org>  Sat, 30 Jan 2021 10:03:12 +0100

hyphy (2.5.27+dfsg-1) unstable; urgency=medium

  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Tue, 26 Jan 2021 16:47:41 +0530

hyphy (2.5.26+dfsg-1) unstable; urgency=medium

  * New upstream version 2.5.26+dfsg
  * Add createmanpages script to
    manage manpages for future versions
  * Update hyphy manpage

 -- Nilesh Patra <npatra974@gmail.com>  Mon, 18 Jan 2021 13:57:49 +0000

hyphy (2.5.25+dfsg-1) unstable; urgency=medium

  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Sun, 10 Jan 2021 11:25:52 +0530

hyphy (2.5.24+dfsg-2) unstable; urgency=medium

  [ Pino Toscano ]
  * Fix reference to the build directory
    Closes: #977992

 -- Andreas Tille <tille@debian.org>  Thu, 24 Dec 2020 07:11:25 +0100

hyphy (2.5.24+dfsg-1) unstable; urgency=medium

  * New upstream version
  * Standards-Version: 4.5.1 (routine-update)

 -- Nilesh Patra <npatra974@gmail.com>  Mon, 21 Dec 2020 13:35:37 +0530

hyphy (2.5.23+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Wed, 18 Nov 2020 20:07:16 +0000

hyphy (2.5.22+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Tue, 17 Nov 2020 18:54:31 +0530

hyphy (2.5.21+dfsg-2) unstable; urgency=medium

  * Team Upload.
  * Remove failing tests on 32-bit archs

 -- Nilesh Patra <npatra974@gmail.com>  Sat, 31 Oct 2020 23:42:17 +0530

hyphy (2.5.21+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Sat, 31 Oct 2020 19:16:55 +0530

hyphy (2.5.20+dfsg-1) unstable; urgency=medium

  * Team upload.
  * New upstream version

 -- Nilesh Patra <npatra974@gmail.com>  Thu, 22 Oct 2020 20:14:59 +0530

hyphy (2.5.19+dfsg-1) unstable; urgency=medium

  * New upstream version
  * Refresh patches
  * Wrap up manual pages for hyphy-pt and hyphy-mpi

 -- Étienne Mollier <etienne.mollier@mailoo.org>  Sat, 10 Oct 2020 15:27:47 +0200

hyphy (2.5.18+dfsg-1) unstable; urgency=medium

  [ Étienne Mollier ]
  * New upstream version
  * Standards-Version: 4.5.0 (routine-update)
  * debhelper-compat 13 (routine-update)
  * Add salsa-ci file (routine-update)
  * Rules-Requires-Root: no (routine-update)
  * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
    Repository-Browse.
  * Build with NOAVX and NOSSE3 cmake switches.  (Closes: #961382)
  * GTEST removed in favor of script run_unit_tests.sh:
      - updated d/copyright to remove gtest and include src/contrib;
      - removed note about gtest in d/rules;
      - removed lintian-overrides related to gtest.
  * Refreshed patches:
      - removed drop_profiling_option.patch;
      - removed patches related to gtest;
      - refreshed use_debian_sqlite.patch;
      - added patch to fix compilation issues with NOAVX and NOSSE3;
      - added patch to allow compilation on non-x86 CPU architectures.
  * Refreshed d/hyphy-common.install.

  [ Andreas Tille ]
  * d/rules: Remove some settings made for the former Python package

 -- Étienne Mollier <etienne.mollier@mailoo.org>  Mon, 28 Sep 2020 21:33:54 +0200

hyphy (2.5.1+dfsg-3) unstable; urgency=medium

  * Versioned Depends: hyphy-common (= ${source:Version})
    Closes: #948093

 -- Andreas Tille <tille@debian.org>  Tue, 07 Jan 2020 21:23:52 +0100

hyphy (2.5.1+dfsg-2) unstable; urgency=medium

  * Fix installation of NEWS.Debian to enable arch all only builds
  * Make autopkgtest more verbose

 -- Andreas Tille <tille@debian.org>  Sat, 04 Jan 2020 21:21:58 +0100

hyphy (2.5.1+dfsg-1) unstable; urgency=medium

  [ Helmut Grohne ]
  * Add pkg-config to Build-Depends as FindMPI.cmake will need it for cross
    compilation. (Closes: #943311)

  [ Andreas Tille ]
  * New upstream version
  * debhelper-compat 12
  * Secure URI in copyright format
  * Remove trailing whitespace in debian/changelog
  * New upstream version
  * Standards-Version: 4.4.1
  * Use secure URI in Homepage field.
  * Remove patches msse_option_only_if_available.patch that are missing
    from debian/patches/series.
  * Skip GTEST target for the moment since this is currently in flux
    see https://github.com/veg/hyphy/issues/1058
  * No need to rename executables any more since upstream is doing this now
  * Autopkgtest exists since last release - so close bug
    Closes: #909707

 -- Andreas Tille <tille@debian.org>  Fri, 06 Dec 2019 22:47:47 +0100

hyphy (2.3.14+dfsg-2) unstable; urgency=medium

  [ Saira Hussain ]
  * Team upload.
  * Add unit test description file
  * Add the SimpleAnalyses suite for testing
  * Add control file for AUTOPKGTESTS

  [ Andreas Tille ]
  * Standards-Version: 4.3.1

 -- Saira Hussain <saira.0213@zoho.com>  Fri, 05 Jul 2019 13:45:06 +0000

hyphy (2.3.14+dfsg-1) unstable; urgency=medium

  * New upstream version
  * debhelper 11
  * Standards-Version: 4.2.1

 -- Andreas Tille <tille@debian.org>  Wed, 26 Sep 2018 16:55:30 +0200

hyphy (2.3.13+dfsg-1) unstable; urgency=medium

  * Team upload.

  [ Steffen Moeller ]
  * debian/upstream/metadata: Added ref to OMICtools

  [ Andreas Tille ]
  * New upstream version
  * debhelper 11
  * Add Build-Depends: opencl-dev
  * debian/rules:
     - Do not parse d/changelog
     - regard $(DEB_BUILD_OPTIONS) for override_dh_auto_test

  [ Liubov Chuprikova ]
  * Drop hyphygui as it was removed from upstream
  * Point Vcs fields to salsa.debian.org
  * Standards-Version: 4.1.5

 -- Liubov Chuprikova <chuprikovalv@gmail.com>  Tue, 10 Jul 2018 08:39:13 +0200

hyphy (2.2.7+dfsg-1) unstable; urgency=medium

  * New upstream version
  * Use xz compression in d/watch
  * python-hyphy is now distributed in separate source archive so
    removing it from this package

 -- Andreas Tille <tille@debian.org>  Fri, 14 Oct 2016 08:01:08 +0200

hyphy (2.2.6+dfsg-5) unstable; urgency=medium

  * Fix error: narrowing conversion from 'double' to 'unsigned char'
  * Fix error: replacing false with nil
    Closes: #811866

 -- Andreas Tille <tille@debian.org>  Mon, 15 Aug 2016 12:44:58 +0200

hyphy (2.2.6+dfsg-4) unstable; urgency=medium

  * Fix gcc-6 build issue by incorporating upstream patch
    Closes: #811866
  * cme fix dpkg-control
  * Fix more spelling errors
  * hardening=+bindnow

 -- Andreas Tille <tille@debian.org>  Fri, 22 Jul 2016 15:05:54 +0200

hyphy (2.2.6+dfsg-3) unstable; urgency=medium

  * Change build-dep on python3-dev to python3-all-dev to enable building for
    all supported python3 versions (thanks to Scott Kitterman
    <debian@kitterman.com> for the patch)
    Closes: #809452

 -- Andreas Tille <tille@debian.org>  Wed, 30 Dec 2015 21:49:03 +0100

hyphy (2.2.6+dfsg-2) unstable; urgency=medium

  [ Matthias Klose ]
  * Hand-edit swig generated file to build with Python3.5.
    Closes: #802999

  [ Andreas Tille ]
  * Remove arch specific flags
    Closes: #802994

 -- Andreas Tille <tille@debian.org>  Mon, 26 Oct 2015 11:20:39 +0100

hyphy (2.2.6+dfsg-1) unstable; urgency=medium

  * New upstream version
  * Hack around a mac-ism in setup.py

 -- Andreas Tille <tille@debian.org>  Tue, 22 Sep 2015 17:50:33 +0200

hyphy (2.2.5+dfsg-2) unstable; urgency=medium

  * Versioned Build-Depends: cmake (>= 3.0)
  * Drop profiling option (Thanks for the hint to Michael Banck
    <mbanck@debian.org>)
    Closes: #793345
  * Disable unneded test that breaks on 32 bit architectures (Thanks for
    the hint to Jakub Wilk <jwilk@debian.org>)
    Closes: #793346
  * Make sure that also in tests the existence of SSE3 extension is done
    Closes: #793344

 -- Andreas Tille <tille@debian.org>  Thu, 23 Jul 2015 17:13:45 +0200

hyphy (2.2.5+dfsg-1) unstable; urgency=low

  * Initial release (Closes: #792087)

 -- Andreas Tille <tille@debian.org>  Sat, 11 Jul 2015 06:57:36 +0200
