mira (4.9.6-5) unstable; urgency=medium

  * Team upload

  [ Michael R. Crusoe ]
  * Update homepage URL
  * Mark mira-doc as Multi-Arch: foreign
  * Secure URI in copyright format
  * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
  * Remove trailing whitespace in debian/changelog
  * Remove trailing whitespace in debian/control
  * Remove trailing whitespace in debian/copyright

  [ Andreas Tille ]
  * Remove unneeded get-orig-source target
  * fix race condition during doc build
    Closes: #970443
  * Standards-Version: 4.5.0 (routine-update)
  * debhelper-compat 13 (routine-update)
  * Do not parse d/changelog (routine-update)
  * autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g (routine-update)
  * Add salsa-ci file (routine-update)
  * Rules-Requires-Root: no (routine-update)
  * Set field Upstream-Name in debian/copyright.

  [ Nilesh Patra ]
  * s/DEB_SOURCE/pkg/
  * Remove useless debian/*.dirs

 -- Nilesh Patra <npatra974@gmail.com>  Thu, 17 Sep 2020 16:34:27 +0530

mira (4.9.6-4) unstable; urgency=medium

  [ Steffen Moeller ]
  * debian/upstream/metadata: Added references to
    OMICtools and bio.tools

  [ Andreas Tille ]
  * debhelper 11
  * Point Vcs fields to salsa.debian.org
  * Standards-Version: 4.2.1
  * No extra manpages from Debian

 -- Andreas Tille <tille@debian.org>  Wed, 19 Sep 2018 22:13:29 +0200

mira (4.9.6-3) unstable; urgency=medium

  * Team upload.

  [ Nadiya Sitdykova ]
  * Add autopkgtest test-suite for denovo, mapping and est assembly

 -- Nadiya Sitdykova <rovenskasa@gmail.com>  Mon, 12 Jun 2017 18:29:50 -0400

mira (4.9.6-2) unstable; urgency=medium

  * debhelper 10
  * d/watch: version=4
  * Build-Depends: libfl-dev
    Closes: #846442
  * Remove unused lintian override

 -- Andreas Tille <tille@debian.org>  Sat, 03 Dec 2016 19:05:24 +0100

mira (4.9.6-1) unstable; urgency=medium

  * New upstream release.
  * dropped all patches except for one spelling fix, as they were incorporated
    upstream
  * dropped the -examples package for now, as the minidemo is missing from
    upstream in this release.
  * our manpages have been adopted and adapted upstream, so they have been
    removed
  * added architecture independent package for rfam 12s rRNA database
  * enable building docs & rfam packages separately
  * Standards-Version bump to 3.9.8
  * Updated package descriptions to remove tools that upstream no longer
    provides
  * minidemo is missing from 4.9.6, commented out -examples package for now
  * cleaned out unnecessary stanzas from debian/rules

 -- Michael R. Crusoe <michael.crusoe@gmail.com>  Wed, 04 May 2016 11:18:26 -0700

mira (4.9.5-6) unstable; urgency=medium

  * Fix build issue with gcc-6
    Closes: #822474

 -- Andreas Tille <tille@debian.org>  Mon, 25 Apr 2016 23:48:55 +0200

mira (4.9.5-5) unstable; urgency=medium

  * Make build reproducible; fix FTBFS on non-'C' locales

 -- Michael R. Crusoe <crusoe@ucdavis.edu>  Wed, 03 Feb 2016 06:31:56 +0000

mira (4.9.5-4) unstable; urgency=medium

  * Packaging moved from SVN to Git
  * Loosen boost dependencies.

 -- Michael R. Crusoe <crusoe@ucdavis.edu>  Tue, 02 Feb 2016 00:45:21 -0800

mira (4.9.5-3) unstable; urgency=medium

  * Remove *.cc files that are created by old flex version which breaks
    build otherwise
    Closes: #812681

 -- Andreas Tille <tille@debian.org>  Wed, 27 Jan 2016 13:19:53 +0100

mira (4.9.5-2) unstable; urgency=medium

  * Verify that package builds without problems with gcc-5
    Closes: #793261
  * override false lintian positives
  * Fix spelling
  * wrote missing manpage and moved manpages to separate dir

 -- Andreas Tille <tille@debian.org>  Fri, 04 Dec 2015 12:56:09 +0100

mira (4.9.5-1) unstable; urgency=medium

  * New upstream version
  * Moved debian/upstream to debian/upstream/metadata
  * cme fix dpkg-control

 -- Andreas Tille <tille@debian.org>  Wed, 01 Jul 2015 22:09:47 +0200

mira (4.0.2-1) unstable; urgency=low

  * new upstream version

 -- Thorsten Alteholz <debian@alteholz.de>  Sat, 26 Apr 2014 19:00:35 +0200

mira (4.0-1) unstable; urgency=low

  [ Thorsten Alteholz ]
  * New upstream version
  * debian/rules: add boost dir in auto_configure (Closes: #735798)

  [ Andreas Tille ]
  * cme fix dpkg-control
  * debian/patches/{make.patch,spelling.patch}: applied upstream (thus removed)

 -- Thorsten Alteholz <debian@alteholz.de>  Sun, 02 Feb 2014 22:51:35 +0100

mira (3.9.18-1) unstable; urgency=low

  * New upstream version (most patches applied by upstream)
  * debian/copyright: Add Upstream-Contact
  * debian/control: cme fix dpkg-control
  * debian/mira-assembler.lintian-overrides: deleted unused override
  * debian/rules: Prevent installing duplicated data, rather
    create symlink
  * debian/mirabait.1: wrote missing manpage

 -- Andreas Tille <tille@debian.org>  Fri, 09 Aug 2013 13:59:24 +0200

mira (3.9.17-1) unstable; urgency=low

  [ Thorsten Alteholz ]
  * new upstream version
  * debian/control: Standards-Version set to 3.9.4 (no changes)
  * debian/control: DM-Upload-Allowed: removed
  * debian/control: use dh 9
  * debian/control: add dependency to libboost-iostreams-dev
  * debian/control: improve extended descriptions
  * debian/control: change VCS-tags according to new lintian
  * debian/rules: get-orig-source added
  * debian/watch: do not look at dev-versions
  * debian/mira-doc.README.Debian: correct path to documentation

  [ Dmitrijs Ledkovs ]
  * Build depend on libboost-all-dev and libbz2-dev.
  * Add boost-minimal patch, to add boost-libraries in final linking,
    fixing FTBFS (Closes: #701322)
  * Enable parallel builds, to speed up compilation.

  [ Andreas Tille ]
  * delete debian/README.source which is outdated / wrong
  * debian/*.1: Wrote / reviewed manpages for all installed programs
  * debian/miraSearchESTSNPs.1: Wrote manpage but mention that this
    functionality is deactivated in version 3.9.17
  * debian/mira-assembler.manpages: Simply install all manpages that can be
    found
  * Removed debian/obsolete.mira-assembler.install
  * debian/control: The actual scripts do not contain the .tcl suffix
    in our installation
  * debian/rules:
     - Currently miraSearchESTSNPs and miraclip claim to be deactivated so
       why bothering installing these?
     - Use xz compression for binaries

 -- Andreas Tille <tille@debian.org>  Fri, 07 Jun 2013 08:34:21 +0200

mira (3.4.0.1-3) unstable; urgency=low

  [ Charles Plessy ]
  * Build-depend on libgoogle-perftools-dev instead of libtcmalloc-minimal0
    (debian/control, debian/README.source, debian/rules).
    Closes: #673527, #674822
  * Conforms to Policy 3.9.3 (debian/control, no other changes needed).
  * Rely on dpkg source format 3.0 (quilt) for the patches, and remove
    build dependance on quilt (debian/control, debian/rules).
  * Verbose Debhelper (debian/rules).

  [ Andreas Tille ]
  * debian/upstream: very small fix to prevent bibcheck warning

 -- Charles Plessy <plessy@debian.org>  Mon, 28 May 2012 10:51:01 +0900

mira (3.4.0.1-2) unstable; urgency=low

  [ Andreas Tille ]
  * Remove two patches:
    - read_default_constructor.patch which introduces a duplicate
      bposhashstat_t() definition
    - fix_duplicate_bposhashstat_t_definition.patch which removes
      this duplicate afterwards

  [ Charles Plessy ]
  * Removed unconditional dependency on libtcmalloc-minimal0 (debian/control).
    Closes: #654884
  * Machine-readable debian/copyright file.

 -- Charles Plessy <plessy@debian.org>  Sat, 07 Jan 2012 13:24:48 +0900

mira (3.4.0.1-1) unstable; urgency=low

  * New upstream version
    Closes: #648762 (at least if I'm not mislead - feel free to reopen)
  * debian/control:
    - Added myself to Uploaders
    - Depends: libtcmalloc-minimal0 [i386 amd64]
      Thanks for the patch to Michael Terry <michael.terry@canonical.com>
      however I left out powerpc where libtcmalloc-minimal0 is not
      available
      Closes: #649093
    - Fixed Vcs fields
  * debian/patches/fix_duplicate_bposhashstat_t_definition.patch
    Remove duplicate definition of bposhashstat_t()

 -- Andreas Tille <tille@debian.org>  Thu, 08 Dec 2011 08:50:19 +0100

mira (3.4.0-3ubuntu1) lucid; urgency=low

  * Small fix to dependencies - there is no "mira" binary package

 -- Tim Booth <tbooth@ceh.ac.uk>  Fri, 02 Dec 2011 15:00:35 +0000

mira (3.4.0-3) unstable; urgency=low

  * Rendering Tim's additions available for Debian

 -- Steffen Moeller <moeller@debian.org>  Sat, 03 Sep 2011 01:02:10 +0200

mira (3.4.0-2ubuntu5) lucid; urgency=low

  * Small fix to clean target and suppress warnings
    on Lucid backport.
  * Fixed missing dependency which caused misleading configure
    failure.
  * Yet another missing build dep - flex and xxd

 -- Tim Booth <tbooth@ceh.ac.uk>  Tue, 30 Aug 2011 17:17:11 +0100

mira (3.4.0-2) unstable; urgency=low

  * Fixing source tree (removed PDF with no source)

 -- Steffen Moeller <moeller@debian.org>  Mon, 29 Aug 2011 22:54:53 +0200

mira (3.4.0-1) UNRELEASED; urgency=low

  * New upstream version.
    - added default constructor to avoid FTBFS
  * Sponsoring Tim's work for Debian
  * Using 3.0 (quilt) source format for bz2 upstream

 -- Steffen Moeller <moeller@debian.org>  Tue, 23 Aug 2011 20:46:32 +0200

mira (3.4rc3-2) lucid; urgency=low

  * Version 3.2.1.8 has been removed from SF.net.  Packaging the
    latest RC instead.
  * Fixed linking against tcmalloc (see README)
  * Fixed build of docs - HTML is installed in mira-doc

 -- Tim Booth <tbooth@ceh.ac.uk>  Fri, 19 Aug 2011 12:35:12 +0100

mira (3.2.1.8-1) UNRELEASED; urgency=low

  * Initial release (Closes: #435915)

 -- Steffen Moeller <moeller@debian.org>  Fri, 04 Mar 2011 11:55:25 +0100

mira (3~rc2-1) UNRELEASED; urgency=low

  * Initial packaging.

 -- Charles Plessy <plessy@debian.org>  Tue, 08 Sep 2009 13:35:31 +0900
