Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Name: TopHat
Upstream-Contact: Cole Trapnell <cole@cs.umd.edu>
Source: http://tophat.cbcb.umd.edu/downloads/tophat-2.0.5.tar.gz
Comment:
 Cole Trapnell wrote TopHat. TopHat is built on Bowtie, which was written by
 Ben Langmead and Cole Trapnell.  Daehwan Kim and Geo Pertea added support
 for SOLiD reads. The SeqAn-1.2 library is used in TopHat and
 Bowtie and some of its sources are included in TopHat source releases; its
 authors are Andreas Doring, David Weese, Tobias Rausch, and Knut Reinert.

Files: *
Copyright: © 2003-2010 Cole Trapnell et al
License: Artistic

Files: ax_bam.m4
Copyright: © 2010 Cole Trapnell <cole@cs.umd.edu>
License: GAP
 Copying and distribution of this file, with or without modification, are
 permitted in any medium without royalty provided the copyright notice
 and this notice are preserved.

Files: ax_check_zlib.m4
Copyright: © 2008 Loic Dachary <loic@senga.org>
License: GPL-2+ with autoconf exception
 This program is free software; you can redistribute it and/or modify it
 under the terms of the GNU General Public License as published by the
 Free Software Foundation; either version 2 of the License, or (at your
 option) any later version.
 .
 This program is distributed in the hope that it will be useful, but
 WITHOUT ANY WARRANTY; without even the implied warranty of
 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General
 Public License for more details.
 .
 You should have received a copy of the GNU General Public License along
 with this program. If not, see <http://www.gnu.org/licenses/>.
 .
 As a special exception, the respective Autoconf Macro's copyright owner
 gives unlimited permission to copy, distribute and modify the configure
 scripts that are the output of Autoconf when processing the Macro. You
 need not follow the terms of the GNU General Public License when using
 or distributing such scripts, even though portions of the text of the
 Macro appear in them. The GNU General Public License (GPL) does govern
 all other use of the material that constitutes the Autoconf Macro.
 .
 This special exception to the GPL applies to versions of the Autoconf
 Macro released by the Autoconf Archive. When you make and distribute a
 modified version of the Autoconf Macro, you may extend this special
 exception to the GPL to apply to your modified version as well.

Files: debian/*
Copyright: 2011 Carlos Borroto <carlos.borroto@gmail.com>
           © 2011 Alex Mestiashvili <alex@biotec.tu-dresden.de>
License: GPL-2+

License: Artistic
 This program is free software; you can redistribute it and/or modify
 it under the terms of the Artistic License, which comes with Perl.
 .
 On Debian systems, the complete text of the Artistic License can be
 found in `/usr/share/common-licenses/Artistic'.

License: GPL-2+
 This package is free software; you can redistribute it and/or modify
 it under the terms of the GNU General Public License as published by
 the Free Software Foundation; either version 2 of the License, or
 (at your option) any later version.
 .
 This package is distributed in the hope that it will be useful,
 but WITHOUT ANY WARRANTY; without even the implied warranty of
 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 GNU General Public License for more details.
 .
 You should have received a copy of the GNU General Public License
 along with this program. If not, see <http://www.gnu.org/licenses/>
 .
 On Debian systems, the complete text of the GNU General
 Public License version 2 can be found in "/usr/share/common-licenses/GPL-2".

