COPYING

FFEA is free software, distributed under the GNU General Public License (GPL)
Version 3. See section 1 for details. FFEA includes other code covered by 
several different licenses as described below. The FFEA package in its entirety 
 may be copied, modified or distributed according to the conditions described 
in section 1. However, in the interests of clarity and completeness, some
individual parts of FFEA that can be used under their respective licenses 
are also noted here. 

This file contains the licenses for the following bodies of code:
1. FFEA 
2. RngStreams
3. Tet_a_tet
4. mtTkinter
5. Subset of Boost C++ library.

Our chosen method for packaging distributions (CPack) only permits a 
package to have a single license file, so we are unfortunately forced
to combine all of this information into a single license file. 

==========================================================================


1. FFEA
=======

  Copyright (c) by the Theory and Development FFEA teams,
  as they appear in the README.md file. 
 
  FFEA 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.
 
  FFEA 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 will find below a copy of the GNU General Public License.
 
  To help us fund FFEA development, we humbly ask that you cite 
  the research papers on the package.


 
                    GNU GENERAL PUBLIC LICENSE
                       Version 3, 29 June 2007

 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/>
 Everyone is permitted to copy and distribute verbatim copies
 of this license document, but changing it is not allowed.

                            Preamble

  The GNU General Public License is a free, copyleft license for
software and other kinds of works.

  The licenses for most software and other practical works are designed
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  When we speak of free software, we are referring to freedom, not
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  To protect your rights, we need to prevent others from denying you
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  For example, if you distribute copies of such a program, whether
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  Developers that use the GNU GPL protect your rights with two steps:
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  15. Disclaimer of Warranty.

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                     END OF TERMS AND CONDITIONS

            How to Apply These Terms to Your New Programs

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    <one line to give the program's name and a brief idea of what it does.>
    Copyright (C) <year>  <name of author>

    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/>.

Also add information on how to contact you by electronic and paper mail.

  If the program does terminal interaction, make it output a short
notice like this when it starts in an interactive mode:

    <program>  Copyright (C) <year>  <name of author>
    This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
    This is free software, and you are welcome to redistribute it
    under certain conditions; type `show c' for details.

The hypothetical commands `show w' and `show c' should show the appropriate
parts of the General Public License.  Of course, your program's commands
might be different; for a GUI interface, you would use an "about box".

  You should also get your employer (if you work as a programmer) or school,
if any, to sign a "copyright disclaimer" for the program, if necessary.
For more information on this, and how to apply and follow the GNU GPL, see
<http://www.gnu.org/licenses/>.

  The GNU General Public License does not permit incorporating your program
into proprietary programs.  If your program is a subroutine library, you
may consider it more useful to permit linking proprietary applications with
the library.  If this is what you want to do, use the GNU Lesser General
Public License instead of this License.  But first, please read
<http://www.gnu.org/philosophy/why-not-lgpl.html>.


==========================================================================


2. RngStreams
=============

   Files: src/RngStream.cpp
          include/RngStream.h 
          tests/consistency/rngstream/testRngStream.cpp



 File:           RngStream.cpp for multiple streams of Random Numbers
 Language:       C++ (ISO 1998)
 Copyright:      Pierre L'Ecuyer, University of Montreal
 Date:           14 August 2001


 RngStreams 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.
 
 RngStreams 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 RngStreams.  If not, see <http://www.gnu.org/licenses/>.
 
 We would appreciate that 
 if you use this software for work leading to publications, 
 you cite the following relevant articles in which MRG32k3a 
 and the package with multiple streams were proposed:

 * P. L'Ecuyer, ``Good Parameter Sets for Combined Multiple Recursive Random Number Generators'', 
   Operations Research, 47, 1 (1999), 159--164.

 * P. L'Ecuyer, R. Simard, E. J. Chen, and W. D. Kelton, 
   ``An Objected-Oriented Random-Number Package with Many Long Streams and Substreams'', 
   Operations Research, 50, 6 (2002), 1073--1075

==========================================================================


3. Tet_a_tet
============

   Files: src/CheckTetrahedraOverlap.cpp


   This is a fork of the:
     Fast Tetrahedron-Tetrahedron Overlap Algorithm
   The original file can be found in:
     https://github.com/erich666/jgt-code/blob/master/Volume_07/Number_2/Ganovelli2002/tet_a_tet.h
     as published int the Journal of Graphics Tools.
 

   Original Authors:
    - Fabio Ganovelli, Istituto di Elaborazione dell'Informazione, National Research Council, Pisa, Italy.
    - Frederico Ponchio, Istituto di Elaborazione dell'Informazione, National Research Council, Pisa, Italy.
    - Claudio Rocchini, Istituto di Elaborazione dell'Informazione, National Research Council, Pisa, Italy.


   Modifications by:
    - FFEA team. 


   License:
   tetratetra.cxx                                                        o o       
                                                                  o     o          
   Visual Computing Group                                         _  O  _          
   IEI Institute, CNUCE Institute, CNR Pisa                        \/)\/           
                                                                  /\/|             
   Copyright(C) 2002 by Fabio Ganovelli, Federico Ponchio and Claudio Rocchini |   
   All rights reserved.                                              \             
                                                                                   
   Permission  to use, copy, modify, distribute  and sell this  software and       
   its documentation for any purpose is hereby granted without fee, provided       
   that  the above copyright notice appear  in all copies and that both that       
   copyright   notice  and  this  permission  notice  appear  in  supporting       
   documentation. the author makes  no representations about the suitability       
   of this software for any purpose. It is provided  "as is" without express      *
   or implied warranty.                                                     

==========================================================================



4. mtTkinter
============

   Files: ffeatools/FFEA_analysis/pymol_plugin/mtTkinter.py

Copyright (c) 2009, Allen B. Taylor

This module is free software: you can redistribute it and/or modify
it under the terms of the GNU Lesser 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 Lesser Public License for more details.

You should have received a copy of the GNU Lesser Public License
along with this program.  If not, see <http://www.gnu.org/licenses/>.


==========================================================================



5. Subset of Boost C++ library.
============

    Files: external/boost/*

Boost Software License - Version 1.0 - August 17th, 2003

Permission is hereby granted, free of charge, to any person or organization
obtaining a copy of the software and accompanying documentation covered by
this license (the "Software") to use, reproduce, display, distribute,
execute, and transmit the Software, and to prepare derivative works of the
Software, and to permit third-parties to whom the Software is furnished to
do so, all subject to the following:

The copyright notices in the Software and this entire statement, including
the above license grant, this restriction and the following disclaimer,
must be included in all copies of the Software, in whole or in part, and
all derivative works of the Software, unless such copies or derivative
works are solely in the form of machine-executable object code generated by
a source language processor.

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, TITLE AND NON-INFRINGEMENT. IN NO EVENT
SHALL THE COPYRIGHT HOLDERS OR ANYONE DISTRIBUTING THE SOFTWARE BE LIABLE
FOR ANY DAMAGES OR OTHER LIABILITY, WHETHER IN CONTRACT, TORT OR OTHERWISE,
ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
DEALINGS IN THE SOFTWARE.

==========================================================================



6. Python Iterative Closest Point Algorithm
============

    Files: ffeatools/FFEA_initialise/FFEA_mapping_tools/icp.py

Copyright 2016 Clay Flannigan

Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at

    http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.