/usr/share/doc/bedtools/copyright is in bedtools 2.21.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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Source: https://github.com/arq5x/bedtools2/archive/v2.21.0.tar.gz
License: GPL-2 and MIT and GPL-3+ with runtime exception and zlib
BEDTools combines source code under GPL-2, LGPL-2.1 and MIT licenses, and
links to libc6, libgcc, libstdc++ and zlib1g.
Files: *
Copyright: © 2009,2010,2011 Aaron Quinlan
© 2010 - Assaf Gordon, CSHL
License: GPL-2
Files: src/expand/expand.cpp
Copyright: © 2009, 2010, 2011 - Aaron Quinlan
License: under-the-MIT-license
No further explanation about which MIT license to follow was provided.
Files: src/utils/Fasta/Fasta.cpp
src/utils/Fasta/Fasta.h
Copyright: © 2010 Erik Garrison <erik.garrison@bc.edu>
License: GPL-2
Source: https://github.com/ekg/fastahack
Files: src/utils/BamTools/*
Copyright: © 2009-2010 Derek Barnett, Erik Garrison, Gabor Marth, Michael Stromberg
License: MIT
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: see ‘https://github.com/pezmaster31/bamtools/blob/master/LICENSE’.
Source: https://github.com/pezmaster31/bamtools/wiki
Files: src/utils/gzstream/gzstream.h
Copyright: © 2001 Deepak Bandyopadhyay, Lutz Kettner
License: LGPL-2.1+
This library is free software; you can redistribute it and/or
modify it under the terms of the GNU Lesser General Public
License as published by the Free Software Foundation; either
version 2.1 of the License, or (at your option) any later version.
.
This library 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
Lesser General Public License for more details.
.
You should have received a copy of the GNU Lesser General Public
License along with this library; if not, write to the Free Software
Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
Comment:
On Debian systems, you can find a copy of the GNU Lesser General Public License
version 2.1 in ‘/usr/share/common-licenses/LGPL-2.1’.
Name: gzstream, C++ iostream classes wrapping the zlib compression library.
Files: docs/themes/rtd/static/rtd.css_t
Homepage: http://sphinx-doc.org
Name: Sphinx
Copyright: © 2007-2010 by the Sphinx team
License: BSD-2-clause
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.
.
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 THE COPYRIGHT
OWNER OR CONTRIBUTORS 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.
License: GPL-2
This program is free software; you can redistribute it and/or modify
it under the terms of the GNU General Public License version 2 as
published by the Free Software Foundation.
.
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, write to the Free Software Foundation, Inc.,
51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
Comment:
On Debian systems, you can find a copy of the GNU General Public License
version 2 in ‘/usr/share/common-licenses/GPL-2’.
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