exonerate (2.4.0-5) unstable; urgency=medium

  * Standards-Version: 4.5.1 (routine-update)
  * debhelper-compat 13 (routine-update)
  * autopkgtest: s/ADTTMP/AUTOPKGTEST_TMP/g (routine-update)
  * Add salsa-ci file (routine-update)
  * Rules-Requires-Root: no (routine-update)
  * Update watch file format version to 4.
  * Set field Upstream-Name in debian/copyright.
  * Refer to specific version of license GPL-3+.
  * Remove obsolete field Name from debian/upstream/metadata (already present in
    machine-readable debian/copyright).

 -- Andreas Tille <tille@debian.org>  Thu, 03 Dec 2020 21:56:27 +0100

exonerate (2.4.0-4) unstable; urgency=medium

  [ Jelmer Vernooĳ ]
  * Trim trailing whitespace.
  * Use secure copyright file specification URI.

  [ Andreas Tille ]
  * Point Vcs fields to salsa.debian.org
  * Standards-Version: 4.3.0
  * Respect DEB_BUILD_OPTIONS in override_dh_auto_test target

 -- Andreas Tille <tille@debian.org>  Sun, 06 Jan 2019 22:02:34 +0100

exonerate (2.4.0-3) unstable; urgency=medium

  [ Steffen Moeller ]
  * debian/upstream/metadata: Added references to registries.

  [ Helmut Grohne ]
  * make pkg-config macro cross compilation safe
    Closes: #888032

  [ Andreas Tille ]
  * debhelper 11
  * Standards-Version: 4.1.3

 -- Andreas Tille <tille@debian.org>  Tue, 23 Jan 2018 11:37:37 +0100

exonerate (2.4.0-2) unstable; urgency=medium

  [ Canberk Koç ]
  * Team upload
  * debian/tests: added testsuite
  * debian/rules: changes for testing

  [ Andreas Tille ]
  * cme fix dpkg-control

 -- Canberk Koç <canberkkoc@gmail.com>  Wed, 18 May 2016 14:11:15 +0200

exonerate (2.4.0-1) unstable; urgency=medium

  * New upstream version
  * Moved packaging from SVN to Git
  * Better hardening

 -- Andreas Tille <tille@debian.org>  Sun, 20 Mar 2016 12:24:30 +0100

exonerate (2.2.0-7) unstable; urgency=low

  [ Charles Plessy ]
  * renamed debian/upstream-metadata.yaml to debian/upstream/metadata

  [ Andreas Tille ]
  * debian/upstream/metadata:
     - Took over some detail from tasks file; moved DOI+PMID
       to References
     - Added eprint
  * debian/reference removed in favour of debian/upstream/metadata
  * debian/copyright: Deleted bouncing upstream contact address
  * fixed upstream homepage
  * fix watch file
  * do not maintain duplicated information in debian/upstream/metadata
  * cme fix dpkg-control
  * debhelper 9
  * DEP5
  * fix spelling and manpage syntax issues
  * remove outdated README.Debian

 -- Andreas Tille <tille@debian.org>  Mon, 11 Jan 2016 09:54:39 +0100

exonerate (2.2.0-6) unstable; urgency=low

  * debian/patches/autoreconf.patch: Removed because not needed
    when using dh-autoreconf

 -- Andreas Tille <tille@debian.org>  Thu, 12 Jan 2012 11:29:32 +0100

exonerate (2.2.0-5) unstable; urgency=low

  * Rather use dh-autoreconf as advised in another patch from
    Micah Gersten <micahg@ubuntu.com> (thanks for your patience)
    Finally Closes #651802

 -- Andreas Tille <tille@debian.org>  Thu, 12 Jan 2012 11:11:06 +0100

exonerate (2.2.0-4) unstable; urgency=low

  * Use autotools_dev properly
    Closes: #651802

 -- Andreas Tille <tille@debian.org>  Fri, 06 Jan 2012 23:04:31 +0100

exonerate (2.2.0-3) unstable; urgency=low

  [ Charles Plessy ]
  * Documented some meta-information in ‘debian/upstream-metadata.yaml’.

  [ Andreas Tille ]
  * debian/source/format: 3.0 (quilt)
  * debian/control:
    - Standards-Version: 3.9.2 (no changes needed)
    - Fixed Vcs fields
  * Debhlper 8 (control+compat)
  * debian/copyright: some DEP5 changes
  * debian/patches/fix_build-as-needed.patch: Fix build with --as-needed
    (Thanks to Micah Gersten <micahg@ubuntu.com>)
    Closes: #651802
  * debian/patches/autoreconf.patch: Build with recent autotools
  * debian/patches/manpages.patch: Fix some lintian warnings
  * debian/rules:
    - Convert to short dh notation
    - Remove codegen in clean target
    - Install upstream changelog only once

 -- Andreas Tille <tille@debian.org>  Mon, 12 Dec 2011 13:13:02 +0100

exonerate (2.2.0-2) unstable; urgency=low

  [ Charles Plessy ]
  * debian/control:
    - Enhances bioperl-run instead of bioperl.
    - Incremented Standards-Version to reflect conformance with Policy
      3.8.3 (no changes needed).

  [ Andreas Tille ]
  * debian/control
    - s/libreadline5-dev/libreadline-dev/
    - s/Debian-Med/Debian Med/

 -- Andreas Tille <tille@debian.org>  Sun, 13 Sep 2009 17:34:07 +0200

exonerate (2.2.0-1) unstable; urgency=low

  * New upstream release (LP: #285237).
    This version includes fixes for problems with excessive memory consumption
    when compiled against glib-2, and fixes a bug with using exonerate-server
    with unmasked sequences.

 -- Charles Plessy <plessy@debian.org>  Mon, 20 Oct 2008 14:18:36 +0200

exonerate (2.1.0-1) unstable; urgency=low

  * New upstream release (LP: #254115).
    - This version includes many optimisations and bug fixes for the
      exonerate-server. It is now possible to search a whole human-sized
      genome with a typical cDNA or protein query in under a second.
    - Exonerate-server uses use pthreads by default.
  * debian/control, debian/compat: switched to debhelper 7.
  * debian/control:
    - Checked conformance with Policy 3.8.0.
    - Enhances: bioperl.
  * debian/rules:
    - `--enable-glib2' removed as now default.
    - Activated tests after build.
  * Updated debian/copyright.

 -- Charles Plessy <plessy@debian.org>  Mon, 04 Aug 2008 19:13:05 +0900

exonerate (2.0.0-1) unstable; urgency=low

  [ David Paleino ]
  * Updated to Standards-Version 3.8.0 (no changes needed)

  [ Charles Plessy ]
  * New upstream release (Closes: #479323)
    Quoting the upstream changelog:
    o Modified exonerate to work in Client:Server mode
    o Fixed --refine to work with SDP alignments
    o Disabled codegen warnings from bootstrapper during compilation
    o Added --geneticcode option for using alternative genetic codes
    o Added --splice5 and --splice3 to allow alternative splice site PSSMs
    o Fixed several bugs when scanning query sequences (eg. --forcescan query)
    o Fixed to report query on forward strand whenever possible.
    o Fixed --ryo sequence dumping with --bestn
    o Fixed a bug with missing seeds when using --annotation
    o Changed license to GPLv3
    o Added protein2dna:bestfit and protein2genome:bestfit models
      (works with exhaustive alignment only)
  * Updated my email address.
  * debian/control:
    - Building on glib-2.0 instead of 1.2.
    - Added a build dependency on libreadline5-dev.
    - Augmented the long description and changed the short.
    - Added a build dependency on CDBS.
  * debian/copyright made machine-readable.
  * debian/rules switched to cdbs.
  * debian/dirs: removed.

 -- Charles Plessy <plessy@debian.org>  Wed, 02 Jul 2008 11:24:48 +0900

exonerate (1.4.0-1) unstable; urgency=low

  * Initial release (Closes: #431404).

 -- Steffen Moeller <moeller@debian.org>  Mon, 02 Jul 2007 11:42:38 +0200
