ampliconnoise (1.29-16) unstable; urgency=medium

  * Team upload.
  [ Adrian Bunk ]
  * Fix FTBFS with GCC 15. Closes: #1096305.
  [ Santiago Vila ]
  * Create bin directory before dh_auto_clean to make Salsa CI happy.
  * Update standards-version.

 -- Santiago Vila <sanvila@debian.org>  Sun, 21 Sep 2025 18:55:00 +0200

ampliconnoise (1.29-15) unstable; urgency=medium

  * d/t/Run.sh: remove openmpi specific --use-hwthread-cpu argument.
  * d/rules: do not enforce openmpi compiler.
  * d/bin_override/mpicc: remove now unneeded wrapper.
  * d/{,t}/control: migrate to mpi-default- packages.
    This replaces the use of openmpi specifically. (Closes: #1087997)
    MPICH4 seems to be operating properly with ampliconnoise.

 -- Étienne Mollier <emollier@debian.org>  Tue, 26 Nov 2024 22:12:39 +0100

ampliconnoise (1.29-14) unstable; urgency=medium

  [ Andreas Tille ]
  * Remove Tim Booth <tbooth@ceh.ac.uk> since address is bouncing
    (Thank you for your work on this package, Tim)

  [ Étienne Mollier ]
  * d/rules: build i386 binaries with -ffloat-store.
    This fixes slignt result mismatches on i386 caught by autopkgtest.
  * d/patches/*: normalize dep3 header, notably timestamps.
  * d/control: add myself to uploaders.

 -- Étienne Mollier <emollier@debian.org>  Mon, 18 Nov 2024 22:02:59 +0100

ampliconnoise (1.29-13) unstable; urgency=medium

  * Team upload.
  * Rename bin/.gitignore to bin/.placeholder. Should make the package
    to build again from source.

 -- Santiago Vila <sanvila@debian.org>  Thu, 08 Aug 2024 02:20:00 +0200

ampliconnoise (1.29-12) unstable; urgency=medium

  * Team upload.
  * gcc-14.patch: new: fix functions implicitly typed. (Closes: #1077153)
  * hardening.patch: also propagate CPPFLAGS for fortify support.

 -- Étienne Mollier <emollier@debian.org>  Wed, 07 Aug 2024 14:20:46 +0200

ampliconnoise (1.29-11) unstable; urgency=medium

  * Fix the sequence of function definitions to make sure
    UpdateMinCacheForRow() is known before its first usage
    Closes: #1066300
  * Adjust DEP3 headers and add Forwarded: No (orphaned upstream)
  * Add missing header file
  * Standards-Version: 4.7.0 (routine-update)

 -- Andreas Tille <tille@debian.org>  Thu, 11 Apr 2024 09:56:08 +0200

ampliconnoise (1.29-10) unstable; urgency=medium

  * Fix watchfile to detect new versions on github
  * Standards-Version: 4.6.0 (routine-update)

 -- Andreas Tille <tille@debian.org>  Fri, 08 Oct 2021 23:00:19 +0200

ampliconnoise (1.29-9) unstable; urgency=medium

  [ Andreas Tille ]
  * Fix edam syntax input+output is singular
  * SEQwiki is deprecated

  [ Steffen Moeller ]
  * d/u/metadata: yamllint

  [ Pranav Ballaney ]
  * Install example and reference data
  * Add autopkgtests
  * Install docs
  * Add Pranav Ballaney to Uploaders

  [ Andreas Tille ]
  * Standards-Version: 4.5.0 (routine-update)
  * debhelper-compat 13 (routine-update)
  * Remove trailing whitespace in debian/changelog (routine-update)
  * Add salsa-ci file (routine-update)
  * Rules-Requires-Root: no (routine-update)
  * Trim trailing whitespace.
  * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
    Repository-Browse.

 -- Pranav Ballaney <ballaneypranav@gmail.com>  Sun, 19 Jul 2020 13:06:00 +0530

ampliconnoise (1.29-8) unstable; urgency=medium

  * Set Homepage to automatic clone from googlecode to Github
  * debhelper 11
  * Point Vcs fields to salsa.debian.org
  * Standards-Version: 4.2.1

 -- Andreas Tille <tille@debian.org>  Fri, 19 Oct 2018 14:20:25 +0200

ampliconnoise (1.29-7) unstable; urgency=medium

  * Moved packaging from SVN to Git
  * Standards-Version: 4.1.1

 -- Andreas Tille <tille@debian.org>  Mon, 13 Nov 2017 14:56:48 +0100

ampliconnoise (1.29-6) unstable; urgency=medium

  [ Steffen Moeller and Jon Ison ]
  * Introduction of EDAM annotation in debian/upstream/edam

  [ Andreas Tille ]
  * Add README.source with status of code copies on Github
  * Sort out most sensible location for source on Gitgub and point d/watch
    as well as Source field in d/control to it
  * cme fix dpkg-control
  * debhelper 10
  * hardening=+all

 -- Andreas Tille <tille@debian.org>  Thu, 17 Nov 2016 11:02:49 +0100

ampliconnoise (1.29-5) unstable; urgency=medium

  * Fix Mayhem issues by making reading fasta files more robust
    Closes: #715593, #715594
  * Fix remaining hardening issue

 -- Andreas Tille <tille@debian.org>  Fri, 18 Dec 2015 16:05:09 +0100

ampliconnoise (1.29-4) unstable; urgency=medium

  [ Bas Couwenberg ]
  * Drop explicit dependency on libgsl0ldbl, rely on ${shlibs:Depends}.
    Closes: #807177

  [ Andreas Tille ]
  * Verified Mayhem bugs (bugs in Perseus and PerseusD remain)
    Closes: #715585

 -- Andreas Tille <tille@debian.org>  Mon, 07 Dec 2015 16:45:40 +0100

ampliconnoise (1.29-3) unstable; urgency=medium

  [ Bas Couwenberg ]
  * Update build dependencies for GSL 2, change libgsl0-dev to libgsl-dev.
    Closes: #804246

  [ Andreas Tille ]
  * cme fix dpkg-control
  * DEP5 fix

 -- Andreas Tille <tille@debian.org>  Sun, 06 Dec 2015 21:57:05 +0100

ampliconnoise (1.29-2) unstable; urgency=low

  [ Arthur Marble ]
  * Fix the FTBFS with clang:
    - Fixed the non-void function should return a value in
      FCluster/FCluster.c
      SplitClusterEven/SplitClusterEven.c
    Closes: #740029

  [ James McCoy ]
  * Moved debian/upstream to debian/upstream/metadata

 -- Andreas Tille <tille@debian.org>  Tue, 25 Feb 2014 08:57:09 +0100

ampliconnoise (1.29-1) unstable; urgency=medium

  * New upstream version
  * debian/control:
     - cme fix dpkg-control
     - shorter short decription

 -- Andreas Tille <tille@debian.org>  Sun, 12 Jan 2014 21:14:08 +0100

ampliconnoise (1.28-1) unstable; urgency=low

  * New upstream version uploaded to Debian
  * debian/control
     - cme fix dpkg-control
     - no need to Build-Depend from quilt
     - debhelper 9
     - Priority: optional
     - Normalised Vcs fields
     - Remove duplicated publication information from
       long description
  * debian/get-orig-source: Removed because upstream
    stripped off their tarball
  * debian/README.source: Removed because it became now
    unneeded.
  * debian/doc-base: created
  * debian/rules:
     - do not compress pdf files
  * debian/patches/hardening.patch: Propagate hardening options

 -- Andreas Tille <tille@debian.org>  Tue, 30 Jul 2013 09:49:02 +0200

ampliconnoise (1.28-0ubuntu2) precise; urgency=low

  * Apply patch for segfault on attempt to load non-FASTA files

 -- Tim Booth <tbooth@ceh.ac.uk>  Thu, 27 Jun 2013 18:06:14 +0100

ampliconnoise (1.28-0ubuntu1) precise; urgency=low

  * New upstream
  * Upstream tarball now free of junk so using pristine version
  * MPI versions of most things have now vanished

 -- Tim Booth <tbooth@ceh.ac.uk>  Thu, 14 Mar 2013 16:40:12 +0000

ampliconnoise (1.25-2) UNRELEASED; urgency=low

  * debian/upstream: Add citation information
  * debian/watch: Fixed googlecode URL
  * debian/copyright:
     - DEP5
     - Add Files-Excluded to document what was removed from original source

 -- Andreas Tille <tille@debian.org>  Wed, 16 May 2012 16:22:08 +0200

ampliconnoise (1.25-1) unstable; urgency=low

  [ Steffen sponsoring Tim's update ]
  * Removed Steffen from uploader's list
  * Removing emacs-typical backup files from source tree

 -- Tim Booth <tbooth@ceh.ac.uk>  Sun, 21 Aug 2011 13:06:37 +0200

ampliconnoise (1.25-1) lucid; urgency=low

  * Rebuild for new version - minor fix from upstream

 -- Tim Booth <tbooth@ceh.ac.uk>  Wed, 17 Aug 2011 16:11:35 +0100

ampliconnoise (1.24-1) unstable; urgency=low

  * debian/watch: Use googlecode.debian.net to make sure the
    source tarball will be really found
  * debian/get-orig-source: Make sure temporary dir will be
    created, less noisy
  * debian/copyright: DEP5 format

 -- Andreas Tille <tille@debian.org>  Mon, 11 Jul 2011 19:22:16 +0200

ampliconnoise (1.24-1ubuntu2) lucid; urgency=low

  * Fix build to use OpenMPI explicitly. Explicitly made build use
    mpicc.openmpi even if MPICH2 is installed and set as default.
  * More tweaks to ugly tarball repacking.

 -- Tim Booth <tbooth@ceh.ac.uk>  Thu, 07 Jul 2011 17:39:42 +0100

ampliconnoise (1.24-1ubuntu1) lucid; urgency=low

  * New upstream

 -- Tim Booth <tbooth@ceh.ac.uk>  Fri, 20 May 2011 17:04:15 +0100

ampliconnoise (1.22-2) unstable; urgency=low

  * Initial upload (Closes: #624362).
  * Helped the (still too complicated) update script.
  * Added myself to uploaders.

  [ Tim Booth ]
  * Included scripts dir, that had been left out

 -- Steffen Moeller <moeller@debian.org>  Tue, 03 May 2011 10:55:36 +0200

ampliconnoise (1.22-1ubuntu4) lucid; urgency=low


  [ Tim Booth ]
  * Included required data and set paths to find it.
  * Fixed build dependency on libmpich2-dev
  * Added a rule to repack the upstream source
  * Cleanups of boilerplate text in patches and dh files
  * Added basic manpage (generated from POD)
  * Included scripts dir, that had been left out

  [ Andreas Tille ]
  * debian/control:
    - Moved package to Debian Med team maintenance and added myself
      as Uploader
    - Standards-Version: 3.9.2 (no changes needed)
    - VCS fields

 -- Tim Booth <tbooth@ceh.ac.uk>  Wed, 04 May 2011 16:43:53 +0100

ampliconnoise (1.22-1ubuntu2) lucid; urgency=low

  * Build for Lucid.

 -- Tim Booth <tbooth@ceh.ac.uk>  Wed, 27 Apr 2011 17:40:28 +0100

ampliconnoise (1.22-1) UNRELEASED; urgency=low

  * Initial packaging.

 -- Tim Booth <tbooth@ceh.ac.uk>  Wed, 27 Apr 2011 14:48:11 +0100
