[med-svn] r7736 - trunk/packages/seqan/trunk/debian

Mon Sep 12 05:08:00 UTC 2011

Author: plessy
Date: 2011-09-12 05:08:00 +0000 (Mon, 12 Sep 2011)
New Revision: 7736

Modified:
   trunk/packages/seqan/trunk/debian/copyright
Log:
Investigating the diff between 1.2 and 1.3; found a convenience copy of SAMtools.

Check if the libbam package in Debian can be used instead.


Modified: trunk/packages/seqan/trunk/debian/copyright
===================================================================

--- trunk/packages/seqan/trunk/debian/copyright	2011-09-12 04:26:36 UTC (rev 7735)
+++ trunk/packages/seqan/trunk/debian/copyright	2011-09-12 05:08:00 UTC (rev 7736)
@@ -1,8 +1,8 @@
 Format: http://dep.debian.net/deps/dep5/
-Source: http://www.seqan.de/uploads/media/Seqan_Release_1.2.zip
+Source: http://www.seqan.de/uploads/media/Seqan_Release_1.3.zip
 
 Files: *
-Copyright: © 2007-2009
+Copyright: © 2007-2010
            Andreas Döring <doering at inf.fu-berlin.de>
            David Weese <weese at inf.fu-berlin.de>
            Tobias Rausch <rausch at inf.fu-berlin.de>
@@ -13,6 +13,67 @@
            Marcel H. Schulz. <marcel.schulz at molgen.mpg.de>
 License: LGPL-3+
 
+Files: apps/mason/* apps/rabema/* demos/tutorial/read_mapping/minimapper.cpp
+Copyright:  © 2010 Manuel Holtgrewe, FU Berlin
+License: GPL-3+
+
+Files: apps/stellar/*
+Copyright: © 2010  Birte Kehr
+License: LGPL-3+
+
+Files: cmake/CMake/cuda/FindCUDA/*
+Copyright: © 2008 - 2009 NVIDIA Corporation.  All rights reserved.
+           ©  2007-2009  Scientific Computing and Imaging Institute, University of Utah
+License: MIT-cuda
+ License for the specific language governing rights and limitations under
+ Permission is hereby granted, free of charge, to any person obtaining a
+ copy of this software and associated documentation files (the "Software"),
+ to deal in the Software without restriction, including without limitation
+ the rights to use, copy, modify, merge, publish, distribute, sublicense,
+ and/or sell copies of the Software, and to permit persons to whom the
+ Software is furnished to do so, subject to the following conditions:
+ .
+ The above copyright notice and this permission notice shall be included
+ in all copies or substantial portions of the Software.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
+ OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+ FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
+ THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+ LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
+ FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
+ DEALINGS IN THE SOFTWARE.
+Comment: bogus first line ?
+
+Files: seqan-1.3/doc/shape_predefined.h
+Copyright: © 2006-2010, Knut Reinert, FU Berlin
+License: 3BSD-like
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions are met:
+ .
+     * Redistributions of source code must retain the above copyright
+       notice, this list of conditions and the following disclaimer.
+     * Redistributions in binary form must reproduce the above copyright
+       notice, this list of conditions and the following disclaimer in the
+       documentation and/or other materials provided with the distribution.
+     * Neither the name of Knut Reinert or the FU Berlin nor the names of
+       its contributors may be used to endorse or promote products derived
+       from this software without specific prior written permission.
+ .
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+ AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+ IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ ARE DISCLAIMED. IN NO EVENT SHALL KNUT REINERT OR THE FU BERLIN BE LIABLE
+ FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+ DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+ SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+ CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
+ LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
+ OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH
+ DAMAGE.
+
+Files: seqan-1.3/lib/samtools
+
 Files: seqan/index/index_sa_lss.h
 Copyright: © 1999, N. Jesper Larsson <jesper at cs.lth.se>
            © 2007 David Weese.
@@ -37,3 +98,20 @@
  On Debian systems, you can find the LGPL license version 3 in
  ‘/usr/share/common-licenses/LGPL-3’.
 
+License: GPL-3+
+ 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 3 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/>.
+Comment: 
+ On Debian systems, you can find the GPL license version 3 in
+ ‘/usr/share/common-licenses/GPL-3’.
+


