ISOQuant 1.5  2013-09-25

ISOQuant is being continuously improved and may have some bugs and errors!
It is released AS IS with ZERO warranty.
You are welcome to use it at your own risk!

By using ISOQuant you automatically agree to following licenses
of ISOQuant and all redistributed 3rd party libraries and software!

# ISOQuant license
--------------------------------------------------------------------------------
ISOQuant - integrated solution for LC-MS based label-free protein quantification

Copyright (c) 2009 - 2013, JOERG KUHAREV and STEFAN TENZER
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.
3. All advertising materials mentioning features or use of this software
   must display the following acknowledgement:
   This product includes software developed by JOERG KUHAREV and STEFAN TENZER.
4. Neither the name "ISOQuant" 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 JOERG KUHAREV and STEFAN TENZER ''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 JOERG KUHAREV 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.
--------------------------------------------------------------------------------

# JDOM license
--------------------------------------------------------------------------------
$Id: LICENSE.txt,v 1.11 2004/02/06 09:32:57 jhunter Exp $

Copyright (C) 2000-2004 Jason Hunter & Brett McLaughlin.
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 disclaimer that follows
   these conditions in the documentation and/or other materials
   provided with the distribution.

3. The name "JDOM" must not be used to endorse or promote products
   derived from this software without prior written permission.  For
   written permission, please contact <request_AT_jdom_DOT_org>.

4. Products derived from this software may not be called "JDOM", nor
   may "JDOM" appear in their name, without prior written permission
   from the JDOM Project Management <request_AT_jdom_DOT_org>.

In addition, we request (but do not require) that you include in the
end-user documentation provided with the redistribution and/or in the
software itself an acknowledgement equivalent to the following:
    "This product includes software developed by the
     JDOM Project (http://www.jdom.org/)."
Alternatively, the acknowledgment may be graphical using the logos
available at http://www.jdom.org/images/logos.

THIS SOFTWARE IS PROVIDED ``AS IS'' AND ANY EXPRESSED 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 JDOM AUTHORS OR THE PROJECT
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.

This software consists of voluntary contributions made by many
individuals on behalf of the JDOM Project and was originally
created by Jason Hunter <jhunter_AT_jdom_DOT_org> and
Brett McLaughlin <brett_AT_jdom_DOT_org>.  For more information
on the JDOM Project, please see <http://www.jdom.org/>.
--------------------------------------------------------------------------------

# JSiX license
--------------------------------------------------------------------------------
JSiX - the Java SImple programming eXtensions library

Copyright (c) 2007 - 2012, JOERG KUHAREV
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.
3. All advertising materials mentioning features or use of this software
   must display the following acknowledgement:
   This product includes software developed by JOERG KUHAREV.
4. Neither the name "JSiX" 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 JOERG KUHAREV ''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 JOERG KUHAREV 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.
--------------------------------------------------------------------------------

# Apache-POI license
--------------------------------------------------------------------------------
                              Apache License
                        Version 2.0, January 2004
                     http://www.apache.org/licenses/

TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION

1. Definitions.

   "License" shall mean the terms and conditions for use, reproduction,
   and distribution as defined by Sections 1 through 9 of this document.

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   You may add Your own copyright statement to Your modifications and
   may provide additional or different license terms and conditions
   for use, reproduction, or distribution of Your modifications, or
   for any such Derivative Works as a whole, provided Your use,
   reproduction, and distribution of the Work otherwise complies with
   the conditions stated in this License.

5. Submission of Contributions. Unless You explicitly state otherwise,
   any Contribution intentionally submitted for inclusion in the Work
   by You to the Licensor shall be under the terms and conditions of
   this License, without any additional terms or conditions.
   Notwithstanding the above, nothing herein shall supersede or modify
   the terms of any separate license agreement you may have executed
   with Licensor regarding such Contributions.

6. Trademarks. This License does not grant permission to use the trade
   names, trademarks, service marks, or product names of the Licensor,
   except as required for reasonable and customary use in describing the
   origin of the Work and reproducing the content of the NOTICE file.

7. Disclaimer of Warranty. Unless required by applicable law or
   agreed to in writing, Licensor provides the Work (and each
   Contributor provides its Contributions) on an "AS IS" BASIS,
   WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
   implied, including, without limitation, any warranties or conditions
   of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
   PARTICULAR PURPOSE. You are solely responsible for determining the
   appropriateness of using or redistributing the Work and assume any
   risks associated with Your exercise of permissions under this License.

8. Limitation of Liability. In no event and under no legal theory,
   whether in tort (including negligence), contract, or otherwise,
   unless required by applicable law (such as deliberate and grossly
   negligent acts) or agreed to in writing, shall any Contributor be
   liable to You for damages, including any direct, indirect, special,
   incidental, or consequential damages of any character arising as a
   result of this License or out of the use or inability to use the
   Work (including but not limited to damages for loss of goodwill,
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   other commercial damages or losses), even if such Contributor
   has been advised of the possibility of such damages.

9. Accepting Warranty or Additional Liability. While redistributing
   the Work or Derivative Works thereof, You may choose to offer,
   and charge a fee for, acceptance of support, warranty, indemnity,
   or other liability obligations and/or rights consistent with this
   License. However, in accepting such obligations, You may act only
   on Your own behalf and on Your sole responsibility, not on behalf
   of any other Contributor, and only if You agree to indemnify,
   defend, and hold each Contributor harmless for any liability
   incurred by, or claims asserted against, such Contributor by reason
   of your accepting any such warranty or additional liability.

END OF TERMS AND CONDITIONS

APPENDIX: How to apply the Apache License to your work.

   To apply the Apache License to your work, attach the following
   boilerplate notice, with the fields enclosed by brackets "[]"
   replaced with your own identifying information. (Don't include
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   file or class name and description of purpose be included on the
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Copyright [yyyy] [name of copyright owner]

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.


APACHE POI SUBCOMPONENTS:

Apache POI includes subcomponents with separate copyright notices and
license terms. Your use of these subcomponents is subject to the terms
and conditions of the following licenses:


Office Open XML schemas (ooxml-schemas-1.1.jar)

 The Office Open XML schema definitions used by Apache POI are
 a part of the Office Open XML ECMA Specification (ECMA-376, [1]).
 As defined in section 9.4 of the ECMA bylaws [2], this specification
 is available to all interested parties without restriction:

     9.4 All documents when approved shall be made available to
         all interested parties without restriction.

 Furthermore, both Microsoft and Adobe have granted patent licenses
 to this work [3,4,5].

 [1] http://www.ecma-international.org/publications/standards/Ecma-376.htm
 [2] http://www.ecma-international.org/memento/Ecmabylaws.htm
 [3] http://www.microsoft.com/interop/osp/
 [4] http://www.ecma-international.org/publications/files/ECMA-ST/Ecma%20PATENT/ECMA-376%20Edition%201%20Microsoft%20Patent%20Declaration.pdf
 [5] http://www.ecma-international.org/publications/files/ECMA-ST/Ecma%20PATENT/ga-2006-191.pdf


DOM4J library (dom4j-1.6.1.jar)

 Copyright 2001-2005 (C) MetaStuff, Ltd. All Rights Reserved.

 Redistribution and use of this software and associated documentation
 ("Software"), with or without modification, are permitted provided
 that the following conditions are met:

 1. Redistributions of source code must retain copyright
    statements and notices.  Redistributions must also contain a
    copy of this document.

 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.

 3. The name "DOM4J" must not be used to endorse or promote
    products derived from this Software without prior written
    permission of MetaStuff, Ltd.  For written permission,
    please contact dom4j-info@metastuff.com.

 4. Products derived from this Software may not be called "DOM4J"
    nor may "DOM4J" appear in their names without prior written
    permission of MetaStuff, Ltd. DOM4J is a registered
    trademark of MetaStuff, Ltd.

 5. Due credit should be given to the DOM4J Project -
    http://www.dom4j.org

 THIS SOFTWARE IS PROVIDED BY METASTUFF, LTD. AND CONTRIBUTORS
 ``AS IS'' AND ANY EXPRESSED 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
 METASTUFF, LTD. OR ITS 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.


JUnit test library (junit-3.8.1.jar)

 Common Public License - v 1.0

 THE ACCOMPANYING PROGRAM IS PROVIDED UNDER THE TERMS OF THIS COMMON
 PUBLIC LICENSE ("AGREEMENT"). ANY USE, REPRODUCTION OR DISTRIBUTION
 OF THE PROGRAM CONSTITUTES RECIPIENT'S ACCEPTANCE OF THIS AGREEMENT.

 1. DEFINITIONS

 "Contribution" means:

 a) in the case of the initial Contributor, the initial code and
    documentation distributed under this Agreement, and

 b) in the case of each subsequent Contributor:

    i)  changes to the Program, and

    ii) additions to the Program;

    where such changes and/or additions to the Program originate from
    and are distributed by that particular Contributor. A Contribution
    'originates' from a Contributor if it was added to the Program by
    such Contributor itself or anyone acting on such Contributor's behalf.
    Contributions do not include additions to the Program which: (i) are
    separate modules of software distributed in conjunction with the
    Program under their own license agreement, and (ii) are not derivative
    works of the Program.

 "Contributor" means any person or entity that distributes the Program.

 "Licensed Patents " mean patent claims licensable by a Contributor which
 are necessarily infringed by the use or sale of its Contribution alone
 or when combined with the Program.

 "Program" means the Contributions distributed in accordance with this
 Agreement.

 "Recipient" means anyone who receives the Program under this Agreement,
 including all Contributors.

 2. GRANT OF RIGHTS

 a) Subject to the terms of this Agreement, each Contributor hereby grants
    Recipient a non-exclusive, worldwide, royalty-free copyright license
    to reproduce, prepare derivative works of, publicly display, publicly
    perform, distribute and sublicense the Contribution of such
    Contributor, if any, and such derivative works, in source code and
    object code form.

 b) Subject to the terms of this Agreement, each Contributor hereby grants
    Recipient a non-exclusive, worldwide, royalty-free patent license under
    Licensed Patents to make, use, sell, offer to sell, import and
    otherwise transfer the Contribution of such Contributor, if any, in
    source code and object code form. This patent license shall apply to
    the combination of the Contribution and the Program if, at the time
    the Contribution is added by the Contributor, such addition of the
    Contribution causes such combination to be covered by the Licensed
    Patents. The patent license shall not apply to any other combinations
    which include the Contribution. No hardware per se is licensed
    hereunder.

 c) Recipient understands that although each Contributor grants the
    licenses to its Contributions set forth herein, no assurances are
    provided by any Contributor that the Program does not infringe the
    patent or other intellectual property rights of any other entity.
    Each Contributor disclaims any liability to Recipient for claims
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    needed, if any. For example, if a third party patent license is
    required to allow Recipient to distribute the Program, it is
    Recipient's responsibility to acquire that license before
    distributing the Program.

 d) Each Contributor represents that to its knowledge it has sufficient
    copyright rights in its Contribution, if any, to grant the copyright
    license set forth in this Agreement.

 3. REQUIREMENTS

 A Contributor may choose to distribute the Program in object code form
 under its own license agreement, provided that:

 a) it complies with the terms and conditions of this Agreement; and

 b) its license agreement:

    i)   effectively disclaims on behalf of all Contributors all warranties
         and conditions, express and implied, including warranties or
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         consequential damages, such as lost profits;

    iii) states that any provisions which differ from this Agreement are
         offered by that Contributor alone and not by any other party; and

    iv)  states that source code for the Program is available from such
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         reasonable manner on or through a medium customarily used for
         software exchange.

 When the Program is made available in source code form:

 a) it must be made available under this Agreement; and

 b) a copy of this Agreement must be included with each copy of
    the Program.

 Contributors may not remove or alter any copyright notices contained
 within the Program.

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 Recipients to identify the originator of the Contribution.

 4. COMMERCIAL DISTRIBUTION

 Commercial distributors of software may accept certain responsibilities
 with respect to end users, business partners and the like. While this
 license is intended to facilitate the commercial use of the Program,
 the Contributor who includes the Program in a commercial product offering
 should do so in a manner which does not create potential liability for
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 Program in a commercial product offering. The obligations in this
 section do not apply to any claims or Losses relating to any actual
 or alleged intellectual property infringement. In order to qualify,
 an Indemnified Contributor must: a) promptly notify the Commercial
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 Contributor to control, and cooperate with the Commercial Contributor
 in, the defense and any related settlement negotiations. The Indemnified
 Contributor may participate in any such claim at its own expense.

 For example, a Contributor might include the Program in a commercial
 product offering, Product X. That Contributor is then a Commercial
 Contributor. If that Commercial Contributor then makes performance
 claims, or offers warranties related to Product X, those performance
 claims and warranties are such Commercial Contributor's responsibility
 alone. Under this section, the Commercial Contributor would have to
 defend claims against the other Contributors related to those
 performance claims and warranties, and if a court requires any other
 Contributor to pay any damages as a result, the Commercial Contributor
 must pay those damages.

 5. NO WARRANTY

 EXCEPT AS EXPRESSLY SET FORTH IN THIS AGREEMENT, THE PROGRAM IS PROVIDED
 ON AN "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, EITHER
 EXPRESS OR IMPLIED INCLUDING, WITHOUT LIMITATION, ANY WARRANTIES OR
 CONDITIONS OF TITLE, NON-INFRINGEMENT, MERCHANTABILITY OR FITNESS FOR
 A PARTICULAR PURPOSE. Each Recipient is solely responsible for
 determining the appropriateness of using and distributing the Program
 and assumes all risks associated with its exercise of rights under this
 Agreement, including but not limited to the risks and costs of program
 errors, compliance with applicable laws, damage to or loss of data,
 programs or equipment, and unavailability or interruption of operations.

 6. DISCLAIMER OF LIABILITY

 EXCEPT AS EXPRESSLY SET FORTH IN THIS AGREEMENT, NEITHER RECIPIENT NOR
 ANY CONTRIBUTORS SHALL HAVE ANY LIABILITY FOR ANY DIRECT, INDIRECT,
 INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING
 WITHOUT LIMITATION LOST PROFITS), 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 OR
 DISTRIBUTION OF THE PROGRAM OR THE EXERCISE OF ANY RIGHTS GRANTED
 HEREUNDER, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGES.

 7. GENERAL

 If any provision of this Agreement is invalid or unenforceable under
 applicable law, it shall not affect the validity or enforceability of
 the remainder of the terms of this Agreement, and without further
 action by the parties hereto, such provision shall be reformed to the
 minimum extent necessary to make such provision valid and enforceable.

 If Recipient institutes patent litigation against a Contributor with
 respect to a patent applicable to software (including a cross-claim or
 counterclaim in a lawsuit), then any patent licenses granted by that
 Contributor to such Recipient under this Agreement shall terminate as of
 the date such litigation is filed. In addition, if Recipient institutes
 patent litigation against any entity (including a cross-claim or
 counterclaim in a lawsuit) alleging that the Program itself (excluding
 combinations of the Program with other software or hardware) infringes
 such Recipient's patent(s), then such Recipient's rights granted under
 Section 2(b) shall terminate as of the date such litigation is filed.

 All Recipient's rights under this Agreement shall terminate if it fails
 to comply with any of the material terms or conditions of this Agreement
 and does not cure such failure in a reasonable period of time after
 becoming aware of such noncompliance. If all Recipient's rights under
 this Agreement terminate, Recipient agrees to cease use and distribution
 of the Program as soon as reasonably practicable. However, Recipient's
 obligations under this Agreement and any licenses granted by Recipient
 relating to the Program shall continue and survive.

 Everyone is permitted to copy and distribute copies of this Agreement,
 but in order to avoid inconsistency the Agreement is copyrighted and may
 only be modified in the following manner. The Agreement Steward reserves
 the right to publish new versions (including revisions) of this Agreement
 from time to time. No one other than the Agreement Steward has the right
 to modify this Agreement. IBM is the initial Agreement Steward. IBM may
 assign the responsibility to serve as the Agreement Steward to a suitable
 separate entity. Each new version of the Agreement will be given a
 distinguishing version number. The Program (including Contributions) may
 always be distributed subject to the version of the Agreement under which
 it was received. In addition, after a new version of the Agreement is
 published, Contributor may elect to distribute the Program (including
 its Contributions) under the new version. Except as expressly stated in
 Sections 2(a) and 2(b) above, Recipient receives no rights or licenses
 to the intellectual property of any Contributor under this Agreement,
 whether expressly, by implication, estoppel or otherwise. All rights in
 the Program not expressly granted under this Agreement are reserved.

 This Agreement is governed by the laws of the State of New York and the
 intellectual property laws of the United States of America. No party to
 this Agreement will bring a legal action under this Agreement more than
 one year after the cause of action arose. Each party waives its rights
 to a jury trial in any resulting litigation.
--------------------------------------------------------------------------------

# Tagsoup license
--------------------------------------------------------------------------------
                              Apache License
                        Version 2.0, January 2004
                     http://www.apache.org/licenses/

TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION

1. Definitions.

   "License" shall mean the terms and conditions for use, reproduction,
   and distribution as defined by Sections 1 through 9 of this document.

   "Licensor" shall mean the copyright owner or entity authorized by
   the copyright owner that is granting the License.

   "Legal Entity" shall mean the union of the acting entity and all
   other entities that control, are controlled by, or are under common
   control with that entity. For the purposes of this definition,
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