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The main paragraph-sv code (in the src subfolder), documentation, and other
example data in this repository are distributed under the simplified BSD license.
The full text can be found here:
https://github.com/Illumina/licenses/blob/master/Simplified-BSD-License.txt
-------------------------------------------------------------------------------
Copyright (c) 2017 Illumina, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
1. Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
2. 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 HOLDER 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.
-------------------------------------------------------------------------------
The dependencies supplied in the external subfolder are covered by their own
respective licenses as follows (original license text included in the
respective source files / tarballs):
* Htslib 1.5 (MIT license copyright (C) 2012-2014 Genome Research Ltd. -
https://github.com/samtools/htslib/blob/develop/LICENSE)
* Klib/ksw (from https://github.com/attractivechaos/klib -- MIT license)
* Gssw (from https://github.com/vgteam/gssw -- MIT license)
* JsonCPP (Copyright (c) 2007-2010 Baptiste Lepilleur and The JsonCpp Authors, MIT license --
https://github.com/open-source-parsers/jsoncpp/blob/master/LICENSE)
* GetGitRevisionDescription.cmake from
https://github.com/rpavlik/cmake-modules/blob/master/GetGitRevisionDescription.cmake
Copyright Iowa State University 2009-2014
Distributed under the Boost Software License, Version 1.0.
(See http://www.boost.org/LICENSE_1_0.txt)
* Google Test and Google Mock are copyright 2008, Google Inc., see https://github.com/google/googletest/blob/master/googletest/LICENSE
and https://github.com/google/googletest/blob/master/googlemock/LICENSE.
See also the LICENSE files contained in external/googletest-release-1.8.0.tar.gz.
* VG stream.hpp from https://github.com/vgteam/vg/blob/master/src/stream.hpp -- MIT license, see
https://github.com/vgteam/vg/blob/master/LICENSE
* Spdlog from https://github.com/gabime/spdlog (MIT license, Copyright (c) 2016 Gabi Melman.),
see https://github.com/gabime/spdlog/blob/master/LICENSE and the LICENSE file in
external/spdlog.tar.gz
Further dependencies (to be installed by the user of this software):
* Python/Pandas: BSD-compatible
(http://pandas.pydata.org/pandas-docs/stable/overview.html#license)
* Python/PySAM: MIT license (https://github.com/pysam-developers/pysam)
* Boost C++ library: Boost software license
(http://www.boost.org/users/license.html)