Change log for tophat package in Ubuntu

tophat (2.1.1+dfsg1-2ubuntu3) focal; urgency=medium

  * No change rebuild against new boost1.71 ABI

 -- Dimitri John Ledkov <email address hidden>  Mon, 03 Feb 2020 21:48:37 +0000

Available diffs

• diff from 2.1.1+dfsg1-2ubuntu2 to 2.1.1+dfsg1-2ubuntu3 (559 bytes)

tophat (2.1.1+dfsg1-2ubuntu2) focal; urgency=medium

  * Build using dh-python.

 -- Matthias Klose <email address hidden>  Tue, 14 Jan 2020 12:33:45 +0100

Available diffs

• diff from 2.1.1+dfsg1-2 (in Debian) to 2.1.1+dfsg1-2ubuntu2 (933 bytes)
• diff from 2.1.1+dfsg1-2ubuntu1 to 2.1.1+dfsg1-2ubuntu2 (662 bytes)

tophat (2.1.1+dfsg1-2ubuntu1) focal; urgency=medium

  * (Build-)depend on python2.
  * Build using python2.

 -- Matthias Klose <email address hidden>  Fri, 10 Jan 2020 15:37:19 +0100

Available diffs

• diff from 2.1.1+dfsg1-2 (in Debian) to 2.1.1+dfsg1-2ubuntu1 (769 bytes)

tophat (2.1.1+dfsg1-2) unstable; urgency=medium

  * Fix Makefile.am
    Closes: #906510
  * debhelper 11
  * Point Vcs fields to salsa.debian.org
  * Standards-Version: 4.2.0
  * Remove unneeded get-orig-source target

 -- Andreas Tille <email address hidden>  Sat, 18 Aug 2018 09:28:30 +0200

Available diffs

• diff from 2.1.1+dfsg1-1build1 (in Ubuntu) to 2.1.1+dfsg1-2 (1.9 KiB)

tophat (2.1.1+dfsg1-1build1) cosmic; urgency=medium

  * No-change rebuild for boost soname change.

 -- Matthias Klose <email address hidden>  Tue, 17 Jul 2018 13:04:11 +0000

Available diffs

• diff from 2.1.1+dfsg1-1 (in Debian) to 2.1.1+dfsg1-1build1 (315 bytes)

tophat (2.1.1+dfsg1-1) unstable; urgency=medium

  * Team upload

  * debian/upstream/metadata:
    - Added references to registries
    - yamllint cleanliness

  [ Nadiya Sitdykova ]
  * add info about debian/tests/test_data

  [ Fabian Klötzl ]
  * remove convenience copy of samtools.
    Closes: #780816
  * adapt tophat script to recent samtools version

  [ Andreas Tille ]
  * Remove unused license paragraph
  * Standards-Version: 4.1.1
  * Really remove samtools code copy also from source tarball
  * Versioned Depends: samtools (>= 1.5)
  * d/watch: enable numbered dfsg-appendices

 -- Fabian Klötzl <email address hidden>  Wed, 06 Dec 2017 16:13:31 +0100

Available diffs

• diff from 2.1.1+dfsg-3build1 (in Ubuntu) to 2.1.1+dfsg1-1 (267.4 KiB)

tophat (2.1.1+dfsg-3build1) bionic; urgency=medium

  * No-change rebuild for boost soname change.

 -- Matthias Klose <email address hidden>  Thu, 26 Oct 2017 17:24:58 +0000

Available diffs

• diff from 2.1.1+dfsg-3 (in Debian) to 2.1.1+dfsg-3build1 (312 bytes)

tophat (2.1.1+dfsg-3) unstable; urgency=medium

  * Team upload.
  
  [ Nadiya Sitdykova ]
  * Add autopkgtest test-suite 

  [ Andreas Tille ]
  * debhelper 10 (use --no-parallel to avoid build problems)
  * Standards-Version: 4.0.0 (no changes needed)
  * Drop unneeded gbp.conf
  * d/rules: use DEB_SOURCE

 -- Nadiya Sitdykova <email address hidden>  Fri, 14 Jul 2017 21:15:50 -0400

Available diffs

• diff from 2.1.1+dfsg-2build2 (in Ubuntu) to 2.1.1+dfsg-3 (5.8 KiB)

tophat (2.1.1+dfsg-2build2) zesty; urgency=high

  * No change rebuild against boost1.62.

 -- Dimitri John Ledkov <email address hidden>  Tue, 01 Nov 2016 16:50:36 +0000

Available diffs

• diff from 2.1.1+dfsg-2build1 to 2.1.1+dfsg-2build2 (565 bytes)

tophat (2.1.1+dfsg-2build1) yakkety; urgency=medium

  * No-change rebuild for boost soname change.

 -- Matthias Klose <email address hidden>  Thu, 04 Aug 2016 08:33:04 +0000

Available diffs

• diff from 2.1.1+dfsg-2 (in Debian) to 2.1.1+dfsg-2build1 (319 bytes)

tophat (2.1.1+dfsg-2) unstable; urgency=medium

  [ Sascha Steinbiss ]
  * Team upload.
  * Fix building with GCC 6.
    Closes: #811881.

  [ Andreas Tille ]
  * cme fix dpkg-control

 -- Sascha Steinbiss <email address hidden>  Sat, 14 May 2016 15:53:10 +0000

Available diffs

• diff from 2.1.1+dfsg-1 to 2.1.1+dfsg-2 (885 bytes)

tophat (2.1.0+dfsg-1build2) yakkety; urgency=medium

  * No-change rebuild for boost soname change.

 -- Matthias Klose <email address hidden>  Sat, 23 Apr 2016 18:50:34 +0000

Available diffs

• diff from 2.1.0+dfsg-1build1 to 2.1.0+dfsg-1build2 (321 bytes)

tophat (2.1.1+dfsg-1) unstable; urgency=medium

  * Imported Upstream version 2.1.1+dfsg
  * Refresh and delete unused patches
  * Apply cme fix dpkg
  * Export additional hardening flags - hardening=+all
  * Don't install 3rd party software (intervaltree,sortedcontainers)
  * Fix Makefile for the embedded copy of samtools-0.1.18
  * d/copyright:
    - Add Files: stanza for samtools-0.1.18
    - Add to Files-Excluded: intervaltree and sortedcontainers
    - Fix Source url

 -- Alexandre Mestiashvili <email address hidden>  Thu, 17 Mar 2016 14:22:58 +0100

Available diffs

• diff from 2.1.0+dfsg-1build2 (in Ubuntu) to 2.1.1+dfsg-1 (74.0 KiB)

tophat (2.1.0+dfsg-1build1) wily; urgency=medium

  * No-change rebuild using boost 1.58.

 -- Matthias Klose <email address hidden>  Fri, 28 Aug 2015 12:56:12 +0000

Available diffs

• diff from 2.1.0+dfsg-1 (in Debian) to 2.1.0+dfsg-1build1 (314 bytes)

tophat (2.1.0+dfsg-1) unstable; urgency=medium

  * New upstream version

 -- Andreas Tille <email address hidden>  Sat, 18 Jul 2015 17:42:53 +0200

Available diffs

• diff from 2.0.14+dfsg-1 to 2.1.0+dfsg-1 (51.8 KiB)

tophat (2.0.14+dfsg-1) unstable; urgency=medium

  * Imported Upstream version 2.0.14+dfsg
  * d/patches: applied cme fix dpkg, s/Descriptions/Description/

 -- Alexandre Mestiashvili <email address hidden>  Wed, 29 Apr 2015 15:10:10 +0200

Available diffs

• diff from 2.0.13+dfsg-1 to 2.0.14+dfsg-1 (116.0 KiB)

tophat (2.0.13+dfsg-1) unstable; urgency=medium


  [ Andreas Tille ]
  * New upstream version
  * Adapted patches
  
  [ Alexandre Mestiashvili]
  * debian/patches/hardening4samtols.patch: add hardening flags for 
    embedded copy of samtools

 -- Alexandre Mestiashvili <email address hidden>  Sun, 26 Oct 2014 15:53:02 +0100

Available diffs

• diff from 2.0.12+dfsg-1 to 2.0.13+dfsg-1 (332.7 KiB)
• diff from 2.0.12+dfsg-3 to 2.0.13+dfsg-1 (331.7 KiB)

tophat (2.0.12+dfsg-3) unstable; urgency=medium


  * Since tophat depends from bowtie|bowtie2 and now both versions
    are available only on amd64 tophat itself is also
     Architecture: amd64 kfreebsd-amd64
  * Do not "Suggests: bowtie" since it is just in "Depends"
  * cme fix dpkg-control
  * d/copyright: fix "empty-short-license-in-dep5-copyright" lintian
    warnings

 -- Andreas Tille <email address hidden>  Thu, 25 Sep 2014 08:08:34 +0200

tophat (2.0.12+dfsg-1) unstable; urgency=medium


  [ Alexandre Mestiashvili ]
  * d/watch: new url
  * Imported Upstream version 2.0.12+dfsg
  * d/patches/fix_build_w_seqan1.4.patch: patch from Manuel Holtgrewe 
    resolving #733352.
     removed const_ness_part1.patch as the new patch solves the problem 
     completely
    Closes: #733352
  * debian/patches/fix_includes_path.patch: exclude SeqAn-1.3 from configure.ac

 -- Alexandre Mestiashvili <email address hidden>  Thu, 03 Jul 2014 21:06:10 +0200

Available diffs

• diff from 2.0.9-1ubuntu1 (in Ubuntu) to 2.0.12+dfsg-1 (27.7 KiB)
• diff from 2.0.10-1ubuntu1 (in Ubuntu) to 2.0.12+dfsg-1 (8.4 KiB)

tophat (2.0.10-1ubuntu1) trusty; urgency=medium

  * Merge from Debian, remaining changes:
    - Link against boost system.

Available diffs

• diff from 2.0.9-1ubuntu1 to 2.0.10-1ubuntu1 (21.5 KiB)

tophat (2.0.9-1ubuntu1) trusty; urgency=low

  * Merge from Debian, remaining changes:
    - Link against boost system.
  * Specify multiarch boost libdir location.

Available diffs

• diff from 2.0.8b-1ubuntu1 to 2.0.9-1ubuntu1 (133.9 KiB)

tophat (2.0.8b-1ubuntu1) saucy; urgency=low

  * Link against boost system.
 -- Dmitrijs Ledkovs <email address hidden>   Tue, 28 May 2013 13:51:28 +0100

Available diffs

• diff from 2.0.6-1 (in Debian) to 2.0.8b-1ubuntu1 (21.6 KiB)
• diff from 2.0.8b-1 (in Debian) to 2.0.8b-1ubuntu1 (1.4 KiB)

tophat (2.0.8b-1) unstable; urgency=low


  * Imported Upstream version 2.0.8b
    Closes: #707059

 -- Alexandre Mestiashvili <email address hidden>  Tue, 07 May 2013 22:58:36 +0200

Available diffs

• diff from 2.0.8-1 to 2.0.8b-1 (4.0 KiB)

tophat (2.0.8-1) unstable; urgency=low


  * Imported Upstream version 2.0.8

 -- Alexandre Mestiashvili <email address hidden>  Sat, 02 Mar 2013 12:38:32 +0100

tophat (2.0.6-1) unstable; urgency=low


  * Team upload

  [ Carlos Borroto ]
  * Imported Upstream version 2.0.6

 -- Charles Plessy <email address hidden>  Tue, 06 Nov 2012 14:54:31 +0900

Available diffs

• diff from 2.0.5-1 to 2.0.6-1 (13.4 KiB)

tophat (2.0.5-1) unstable; urgency=low


  [ Alexandre Mestiashvili ]
  * Imported Upstream version 2.0.5 

 -- Alexandre Mestiashvili <email address hidden>  Fri, 05 Oct 2012 10:56:26 +0200

Available diffs

• diff from 2.0.3-1 to 2.0.5-1 (61.3 KiB)

tophat (2.0.3-1) unstable; urgency=low


  * Imported Upstream version 2.0.3

 -- Alexandre Mestiashvili <email address hidden>  Sat, 09 Jun 2012 11:06:21 +0200

Available diffs

• diff from 2.0.0-2 to 2.0.3-1 (1.3 MiB)

tophat (2.0.0-2) unstable; urgency=low


  * debian/upstream: BibTeX conform author syntax
  * debian/patces/bashism_in_shell_script.patch: Fix bashism in shell script
    Closes: #671813
  * debhelper 9 (control+compat)
  * debian/rules: Create some manpages using help2man

 -- Andreas Tille <email address hidden>  Sun, 06 May 2012 13:26:38 +0200