	        ADFRsuite LICENSE AGREEMENTS:
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Unless otherwise specified, this software is distributed under the LGPL 2
open source license.
see https://www.gnu.org/licenses/old-licenses/lgpl-2.1.en.html


    ______________________________________________________________
    |Packages 	|               SOFTWARE LICENSES                 | 
    |           |_________________________________________________|      
    |           |   ACADEMIC 	        |       COMMERCIAL        |
    |___________|_______________________|_________________________|
    |mslib 	|  Free for Academic    | Contact Michel Sanner   |
    |           |                       | (sanner@scripps.edu)    |
    |___________|_______________________|_________________________|
    |UTpackages |  Free for Academic    | Contact Chandrajit Bajaj|
    |           |                       |(bajaj@cs.utexas.edu)    |
    |___________|_______________________|_________________________| 

All the components not specifying their own license are under the
Mozilla open source license.

Although this licensing scheme allows the re-distribution of this software
we would appreciate if people using it would download it from our site.
This helps us keep track of who is using it which is a strong argument when
trying to get money to work on this. Thanks !
If you have any questions please contact Michel SANNER (sanner@scripps.edu).


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MSLIB LICENSE AGREEMENT
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FOR COMMERCIAL USE OF MSLIB PLEASE CONTACT Michel SANNER (sanner@scripps.edu)
  
THE SCRIPPS RESEARCH INSTITUTE SOFTWARE LICENSE AGREEMENT
  
1. Grant Of Limited License: Software Use Restrictions. You are free to use the
 program (MSMS) ONLY FOR NON-COMMERCIAL SCIENTIFIC RESEARCH. This license is 
issued to you as an individual. For institution wide use or commercial use of 
the software you will have to follow the official registration procedure. To do
 so you can contact us by e-mail (sanner@scripps.edu), mail (Michel Sanner, 
TSRI,Molecular Biology Department, MB5, 10666 North Torrey Pines Road, 92037 
La Jolla) or fax (858) 784-2860.

2.Credits: WE REQUEST THAT YOU AGREE TO ACKNOWLEDGE THE USE OF THE MSMS 
SOFTWARE THAT RESULTS IN ANY PUBLISHED WORK, INCLUDING SCIENTIFIC PAPERS,
FILMS AND VIDEOTAPES BY CITING THE FOLLOWING REFERENCE:
Sanner, M.F., Spehner, J.-C., and Olson, A.J. (1996) Reduced surface: an 
efficient way to compute molecular surfaces. Biopolymers, Vol. 38, (3), 
305-320.

3. Copying Restrictions: You will not sell or otherwise  transfer these 
programs or derivatives to any other party, whether with or without consideration, for any purpose.

4. Ownership of Software: You will not obtain, and will not attempt to obtain 
copyright coverage thereon without the express purpose written consent of The 
Scripps Research Institute.

5. Limitation Of Liability: You will hold harmless from all or any expenses you
may incur as a result of or arising from your use, direct or indirect, of 
these materials. You understand that no other right or license to this program 
or its derivatives is granted or implied as a result of our transmission of 
same to you. 

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STRIDE LICENSE AGREEMENT
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For any questions regarding the following license agreement please 
contact the
autors of stride :

Dmitrij Frishman & Patrick Argos

Current address of the author:
Dmitrij Frishman, PhD
Institute for Bioinformatics
GSF - Forschungszentrum fr Umwelt und Gesundheit, GmbH
Ingolstdter Landstrae 1,
D-85764 Neuherberg, Germany
Telephone: +49-89-3187-4201
Fax: +49-89-31873585
e-mail: d.frishman@gsf.de
WWW: http://mips.gsf.de/mips/staff/frishman/

STRIDE: Protein secondary structure assignment from atomic coordinates

Dmitrij Frishman & Patrick Argos

All rights reserved, whether the whole or part of the program is concerned.
Permission to use, copy, and modify this software and its documentation is
granted for academic use, provided that:

1. This copyright notice appears in all copies of the software and related
documentation.

2. The reference given below (Frishman and Argos, 1995) must be cited in 
any
publication of scientific results based in part or completely on the use of
the program.

3. Bugs will be reported to the authors. The use of the software in 
commercial
activities is not allowed without a prior written commercial license 
agreement.

WARNING:
STRIDE is provided 'as-is' and without warranty of any kind, express, 
implied
or otherwise, including without limitation any warranty of 
merchantability or
fitness for a particular purpose. In no event will the authors be liable 
for
any special, incidental, indirect or consequential damages of any kind, 
or any
damages whatsoever resulting from loss of data or profits, whether or not
advised of the possibility of damage, and on any theory of liability, 
arising
out of or in connection with the use or performance of this software.

For calculation of the residue solvent accessible area the program NSC 
is used
and was kindly provided by Dr. F.Eisenhaber 
(EISENHABER@EMBL-HEIDELBERG.DE).
Please direct to him all questions concerning specifically accessibility
calculations.

Reference:
Frishman,D & Argos,P. (1995) Knowledge-based secondary structure 
assignment.
Proteins: structure, function and genetics, 23, 566-579.


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UTPACKAGES LICENSE AGREEMENT
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TERMS AND CONDITIONS FOR COPYING, DISTRIBUTION AND MODIFICATION

1. This software is the copyright of THE UNIVERSITY OF TEXAS AT AUSTIN, 2005. 

2. The software is available under multiple licenses.

3. For non commercial educational and non commercial academic use, the software 
including source code, interface definitions and compile scripts are freely available.
Any distribution of code, library or executables which contains any modules from this 
software should contain, conspicously and appropriately, on each copy, this copyright 
and license notice and should be freely distributed.

4. If you wish to incorporate parts of the Library into other free programs whose distribution 
conditions are incompatible with these, write to the author to ask for permission. 
For software which is copyrighted by the Free Software Foundation, write to the Free Software 
Foundation. 

5. For any other purpose, including commercial purposes, please contact The University of 
Texas at Austin for a different license.

6. Credits: 

This software has been developed at the Computational and Visualization center under 
	
	Dr Chandrajit Bajaj,
	Computational Applied Mathematics Chair in Visualization,
	Professor of Computer Sciences,
	Director of Center for Computational Visualization,
	Department of Computer Sciences & The Institute of Computational Engineering and Sciences,
	 Center for Computational Visualization,
	201 East 24th Street, ACES 2.324A,
	1 University Station, C0200,
	Austin, TX 78712-0027.

We request that you agree to acknowledge the use of the software that results in any published 
work, including scientific papers, films and videotapes by citing the references listed below

For UTblur:

C. Bajaj, V. Siddavanahalli
Fast Feature Adaptive Surfaces and Derivatives Computation for Volumetric Particle Data
ICES and CS technical reports, The University of Texas at Austin, 2005.


For UTisocontour:

C. Bajaj, V. Pascucci, D. Schikore
Accelerated IsoContouring of Scalar Fields
Data Visualization Techniques, edited by C. Bajaj, John Wiley and Sons (1998).

C. Bajaj, V. Pascucci, D. Schikore 
Fast Isocontouring for Improved Interactivity 
Proceedings: ACM Siggraph/IEEE Symposium on Volume Visualization, ACM Press, (1996), 
San Francisco, CA. Pages: 39-46 99


For UTmesh:

Y. Zhang, C. Bajaj
Adaptive and Quality Quadrilateral/Hexahedral Meshing from Volumetric Data
Computer Methods in Applied Mechanics and Engineering (CMAME), in press, 2005.

Y. Zhang, C. Bajaj, B-S. Sohn
3D Finite Element Meshing from Imaging Data
The special issue of Computer Methods in Applied Mechanics and Engineering (CMAME) on Unstructured
Mesh Generation, 194(48-49):5083-5106, 2005.


For UTsdf:

C. Bajaj, V. Siddavanahalli
An Adaptive Grid Based Method for Computing Molecular Surfaces and Properties
ICES and CS Technical Reports, The University of Texas at Austin, 2005.


For UTvolrend:

C. Bajaj, Z. Yu, M. Auer 
Volumetric Feature Extraction and Visualization of Tomographic Molecular Imaging.
Journal of Structural Biology, Volume 144, Issues 1-2, October 2003, Pages 132-143


For UTmolderivatives:

C. Bajaj, V. Siddavanahalli
Fast Feature Adaptive Surfaces and Derivatives Computation for Volumetric Particle Data
ICES and CS Technical Reports, The University of Texas at Austin, 2005.

7. No warranty 

7a. Because the library is licensed free of charge, there is no warranty for the library, 
to the extent permitted by applicable law. except when otherwise stated in writing the copyright
holders and/or other parties provide the library "as is" without warranty of any kind, either 
expressed or implied, including, but not limited to, the implied warranties of merchantability and 
fitness for a particular purpose. the entire risk as to the quality and performance of the library 
is with you. should the library prove defective, you assume the cost of all necessary servicing,
repair or correction. 

7b. In no event unless required by applicable law or agreed to in writing will any copyright 
holder, or any other party who may modify and/or redistribute the library as permitted above, 
be liable to you for damages, including any general, special, incidental or consequential damages 
arising out of the use or inability to use the library (including but not limited to loss of data 
or data being rendered inaccurate or losses sustained by you or third parties or a failure of the 
library to operate with any other software), even if such holder or other party has been advised 
of the possibility of such damages. 

END OF TERMS AND CONDITIONS

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PYTHON IMAGING LIBRARY (PIL) LICENSE AGREEMENT
-------------------------------------------------------------------------------
The Python Imaging Library (PIL) is
    Copyright  1997-2004 by Secret Labs AB
    Copyright  1995-2004 by Fredrik Lundh

By obtaining, using, and/or copying this software and/or its associated 
documentation, you agree that you have read, understood, and will comply with 
the following terms and conditions:

Permission to use, copy, modify, and distribute this software and its 
associated documentation for any purpose and without fee is hereby granted, 
provided that the above copyright notice appears in all copies, and that both 
that copyright notice and this permission notice appear in supporting 
documentation, and that the name of Secret Labs AB or the author not be used 
in advertising or publicity pertaining to distribution of the software without 
specific, written prior permission.

SECRET LABS AB AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS 
SOFTWARE, INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN 
NO EVENT SHALL SECRET LABS AB OR THE AUTHOR BE LIABLE FOR ANY SPECIAL, 
INDIRECT OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR OTHER
TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR PERFORMANCE 
OF THIS SOFTWARE.


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 munkres License
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This software is released under a BSD license, adapted from
<http://opensource.org/licenses/bsd-license.php>

Copyright  2008 Brian M. Clapper
All rights reserved.

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 "clapper.org" 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 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.
