[med-svn] [SCM] tophat branch, master, updated. debian/2.0.6-1-3-g67481ec

[Alexandre Mestiashvili]

The following commit has been merged in the master branch:
commit 67481ec3d1c35d8c9bbe33992b30d2c5dba7feb8
Merge: 26feedb7e8f184b78ab942714a63fc41d56011f0 347e0b0cc1f2a81890b5b7911dac2aadb1db0947
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Sat Feb 23 11:45:25 2013 +0100

    Merge tag 'upstream/2.0.7'
    
    Upstream version 2.0.7

diff --combined debian/changelog
index cc94acc,0000000..12ae9d8
mode 100644,000000..100644
--- a/debian/changelog
+++ b/debian/changelog
@@@ -1,142 -1,0 +1,148 @@@
++tophat (2.0.7-1) UNRELEASED; urgency=low
++
++  * Imported Upstream version 2.0.7
++
++ -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Sat, 23 Feb 2013 11:45:36 +0100
++
 +tophat (2.0.6-1) unstable; urgency=low
 +
 +  * Team upload
 +
 +  [ Carlos Borroto ]
 +  * Imported Upstream version 2.0.6
 +
 + -- Charles Plessy <plessy at debian.org>  Tue, 06 Nov 2012 14:54:31 +0900
 +
 +tophat (2.0.5-1) unstable; urgency=low
 +
 +  [ Alexandre Mestiashvili ]
 +  * Imported Upstream version 2.0.5 
 +
 + -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Fri, 05 Oct 2012 10:56:26 +0200
 +
 +tophat (2.0.3-1) unstable; urgency=low
 +
 +  * Imported Upstream version 2.0.3
 +
 + -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Sat, 09 Jun 2012 11:06:21 +0200
 +
 +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 <tille at debian.org>  Sun, 06 May 2012 13:26:38 +0200
 +
 +tophat (2.0.0-1) unstable; urgency=low
 +
 +  [ Charles Plessy ]
 +  * YAML syntax correction
 +
 +  [ Alexandre Mestiashvili ]
 +  * Imported Upstream version 2.0.0
 +  * updated debian/patches
 +  * debian/control added libboost-thread-dev dependency,
 +    added bowtie2 to Suggests:
 +  * debian/control  Standards-Version: 3.9.3 Depends: bowtie2
 +  * debian/copyright updated Format, removed seqan copyright statements
 +  * debian/patches removed unneeded patches
 +  * debian/get-orig-source - removes shipped with tophat SeqAn files.
 +
 + -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Sat, 14 Apr 2012 12:47:32 +0200
 +
 +tophat (1.4.1-2) unstable; urgency=low
 +
 +  [ Carlos Borroto ]
 +  * added bowtie as a binary dependency
 +  * suggests cufflinks
 +
 +  [ Andreas Tille ]
 +  * debian/control: Added myself to uploaders
 +  * debian/patches/remove_cflag_handling_in_configure.patch: Enable better
 +    support for different architectures (Thanks to Peter Michael Green
 +    <plugwash at p10link.net> for the patch)
 +    Closes: #660309
 +  * debian/upstream: Added references
 +
 + -- Andreas Tille <tille at debian.org>  Sat, 18 Feb 2012 08:22:50 +0100
 +
 +tophat (1.4.1-1) unstable; urgency=low
 +
 +  * Team upload.
 +  * Initial upload to Debian archive.
 +
 +  [ Carlos Borroto ]
 +  * New upstream release
 +
 +  [ Charles Plessy ]
 +  * Corrected VCS URL.
 +  * Minor description changes.
 +  * Recommend bowtie.
 +  * debian/copyright:
 +    - Normalised with config-edit --application dpkg-copyright.
 +    - Documented SeqAn and m4 macros.
 +  * Merged patches bam2samtools and fix_includes_path.patch (same purpose).
 +  * Build-depend only on python.
 +  * Tighten build-dependancy on sequan-dev.
 +
 + -- Charles Plessy <plessy at debian.org>  Mon, 06 Feb 2012 16:12:29 +0900
 +
 +tophat (1.4.0-1) UNRELEASED; urgency=low
 +
 +  * New upstream release
 +    - debian/patches/fix_undefined_reference.patch
 +
 + -- Carlos Borroto <carlos.borroto at gmail.com>  Tue, 10 Jan 2012 11:49:39 -0500
 +
 +tophat (1.3.3-1) UNRELEASED; urgency=low
 +
 +  TODO:
 +  * src/SeqAn-1.2 should be excluded
 +    - tophat depends on seqan library which already exists in debian 
 +  
 +  [Alexandre Mestiashvili]
 +  * New upstream release 
 +  * Removed dh-make template from watch file
 +  * Added initial copyright data , removed templates , added Source  
 +  * debian/compat version 8
 +  * debian/control 
 +    - Maintainer: Debian Med Packaging Team
 +      <debian-med-packaging at lists.alioth.debian.org>
 +    - DM-Upload-Allowed: yes
 +    - Added myself to Uploaders:
 +    - added correct Vcs-Git , Vcs-Browser fields
 +    - Standards-Version: 3.9.2
 +    - added build-dependency quilt
 +    - added seqan-dev as dependency
 +  * debian/rules
 +    - removed dh-make template 
 +  * debian/control Added python dependency to binary package
 +  * debian/control Description shouldn't start with package name 
 +  * debian/rules removed quilt patch management
 +  * Added DEP3 headers to patches.
 +  * Added Pre-Depends: dpkg (>= 1.15.6) (xz compression) Fixed syntax-error in debian/copyright
 +
 + -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Thu, 05 Jan 2012 14:37:19 +0100
 +
 +tophat (1.3.1-1ppa1~lucid1) lucid; urgency=low
 +
 +  * New upstream version
 +
 + -- Carlos Borroto <carlos.borroto at gmail.com>  Thu, 23 Jun 2011 11:02:22 -0400
 +
 +tophat (1.3.0-1ppa1~lucid1) lucid; urgency=low
 +
 +  * Backported to lucid
 +
 + -- Carlos Borroto <carlos.borroto at gmail.com>  Wed, 08 Jun 2011 14:56:32 -0400
 +
 +tophat (1.3.0-1) UNRELEASED; urgency=low
 +
 +  * Initial release
 +  * debian/patches/fix_includes_path.patch
 +  * debian/patches/fix-configure.patch
 +
 + -- Carlos Borroto <carlos.borroto at gmail.com>  Wed, 08 Jun 2011 14:34:56 -0400

-- 
A spliced read mapper for RNA-Seq