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666 Thus, it is not the intent of this section to claim rights or contest
667 your rights to work written entirely by you; rather, the intent is to
668 exercise the right to control the distribution of derivative or
669 collective works based on the Program.
671 In addition, mere aggregation of another work not based on the Program
672 with the Program (or with a work based on the Program) on a volume of
673 a storage or distribution medium does not bring the other work under
674 the scope of this License.
676 3. You may copy and distribute the Program (or a work based on it,
677 under Section 2) in object code or executable form under the terms of
678 Sections 1 and 2 above provided that you also do one of the following:
680 a) Accompany it with the complete corresponding machine-readable
681 source code, which must be distributed under the terms of Sections
682 1 and 2 above on a medium customarily used for software interchange; or,
684 b) Accompany it with a written offer, valid for at least three
685 years, to give any third party, for a charge no more than your
686 cost of physically performing source distribution, a complete
687 machine-readable copy of the corresponding source code, to be
688 distributed under the terms of Sections 1 and 2 above on a medium
689 customarily used for software interchange; or,
691 c) Accompany it with the information you received as to the offer
692 to distribute corresponding source code. (This alternative is
693 allowed only for noncommercial distribution and only if you
694 received the program in object code or executable form with such
695 an offer, in accord with Subsection b above.)
697 The source code for a work means the preferred form of the work for
698 making modifications to it. For an executable work, complete source
699 code means all the source code for all modules it contains, plus any
700 associated interface definition files, plus the scripts used to
701 control compilation and installation of the executable. However, as a
702 special exception, the source code distributed need not include
703 anything that is normally distributed (in either source or binary
704 form) with the major components (compiler, kernel, and so on) of the
705 operating system on which the executable runs, unless that component
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708 If distribution of executable or object code is made by offering
709 access to copy from a designated place, then offering equivalent
710 access to copy the source code from the same place counts as
711 distribution of the source code, even though third parties are not
712 compelled to copy the source along with the object code.
714 4. You may not copy, modify, sublicense, or distribute the Program
715 except as expressly provided under this License. Any attempt
716 otherwise to copy, modify, sublicense or distribute the Program is
717 void, and will automatically terminate your rights under this License.
718 However, parties who have received copies, or rights, from you under
719 this License will not have their licenses terminated so long as such
720 parties remain in full compliance.
722 5. You are not required to accept this License, since you have not
723 signed it. However, nothing else grants you permission to modify or
724 distribute the Program or its derivative works. These actions are
725 prohibited by law if you do not accept this License. Therefore, by
726 modifying or distributing the Program (or any work based on the
727 Program), you indicate your acceptance of this License to do so, and
728 all its terms and conditions for copying, distributing or modifying
729 the Program or works based on it.
731 6. Each time you redistribute the Program (or any work based on the
732 Program), the recipient automatically receives a license from the
733 original licensor to copy, distribute or modify the Program subject to
734 these terms and conditions. You may not impose any further
735 restrictions on the recipients' exercise of the rights granted herein.
736 You are not responsible for enforcing compliance by third parties to
739 7. If, as a consequence of a court judgment or allegation of patent
740 infringement or for any other reason (not limited to patent issues),
741 conditions are imposed on you (whether by court order, agreement or
742 otherwise) that contradict the conditions of this License, they do not
743 excuse you from the conditions of this License. If you cannot
744 distribute so as to satisfy simultaneously your obligations under this
745 License and any other pertinent obligations, then as a consequence you
746 may not distribute the Program at all. For example, if a patent
747 license would not permit royalty-free redistribution of the Program by
748 all those who receive copies directly or indirectly through you, then
749 the only way you could satisfy both it and this License would be to
750 refrain entirely from distribution of the Program.
752 If any portion of this section is held invalid or unenforceable under
753 any particular circumstance, the balance of the section is intended to
754 apply and the section as a whole is intended to apply in other
757 It is not the purpose of this section to induce you to infringe any
758 patents or other property right claims or to contest validity of any
759 such claims; this section has the sole purpose of protecting the
760 integrity of the free software distribution system, which is
761 implemented by public license practices. Many people have made
762 generous contributions to the wide range of software distributed
763 through that system in reliance on consistent application of that
764 system; it is up to the author/donor to decide if he or she is willing
765 to distribute software through any other system and a licensee cannot
768 This section is intended to make thoroughly clear what is believed to
769 be a consequence of the rest of this License.
771 8. If the distribution and/or use of the Program is restricted in
772 certain countries either by patents or by copyrighted interfaces, the
773 original copyright holder who places the Program under this License
774 may add an explicit geographical distribution limitation excluding
775 those countries, so that distribution is permitted only in or among
776 countries not thus excluded. In such case, this License incorporates
777 the limitation as if written in the body of this License.
779 9. The Free Software Foundation may publish revised and/or new versions
780 of the General Public License from time to time. Such new versions will
781 be similar in spirit to the present version, but may differ in detail to
782 address new problems or concerns.
784 Each version is given a distinguishing version number. If the Program
785 specifies a version number of this License which applies to it and "any
786 later version", you have the option of following the terms and conditions
787 either of that version or of any later version published by the Free
788 Software Foundation. If the Program does not specify a version number of
789 this License, you may choose any version ever published by the Free Software
792 10. If you wish to incorporate parts of the Program into other free
793 programs whose distribution conditions are different, write to the author
794 to ask for permission. For software which is copyrighted by the Free
795 Software Foundation, write to the Free Software Foundation; we sometimes
796 make exceptions for this. Our decision will be guided by the two goals
797 of preserving the free status of all derivatives of our free software and
798 of promoting the sharing and reuse of software generally.
802 11. BECAUSE THE PROGRAM IS LICENSED FREE OF CHARGE, THERE IS NO WARRANTY
803 FOR THE PROGRAM, TO THE EXTENT PERMITTED BY APPLICABLE LAW. EXCEPT WHEN
804 OTHERWISE STATED IN WRITING THE COPYRIGHT HOLDERS AND/OR OTHER PARTIES
805 PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY OF ANY KIND, EITHER EXPRESSED
806 OR IMPLIED, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
807 MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE ENTIRE RISK AS
808 TO THE QUALITY AND PERFORMANCE OF THE PROGRAM IS WITH YOU. SHOULD THE
809 PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF ALL NECESSARY SERVICING,
810 REPAIR OR CORRECTION.
812 12. IN NO EVENT UNLESS REQUIRED BY APPLICABLE LAW OR AGREED TO IN WRITING
813 WILL ANY COPYRIGHT HOLDER, OR ANY OTHER PARTY WHO MAY MODIFY AND/OR
814 REDISTRIBUTE THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES,
815 INCLUDING ANY GENERAL, SPECIAL, INCIDENTAL OR CONSEQUENTIAL DAMAGES ARISING
816 OUT OF THE USE OR INABILITY TO USE THE PROGRAM (INCLUDING BUT NOT LIMITED
817 TO LOSS OF DATA OR DATA BEING RENDERED INACCURATE OR LOSSES SUSTAINED BY
818 YOU OR THIRD PARTIES OR A FAILURE OF THE PROGRAM TO OPERATE WITH ANY OTHER
819 PROGRAMS), EVEN IF SUCH HOLDER OR OTHER PARTY HAS BEEN ADVISED OF THE
820 POSSIBILITY OF SUCH DAMAGES.
822 END OF TERMS AND CONDITIONS
824 How to Apply These Terms to Your New Programs
826 If you develop a new program, and you want it to be of the greatest
827 possible use to the public, the best way to achieve this is to make it
828 free software which everyone can redistribute and change under these terms.
830 To do so, attach the following notices to the program. It is safest
831 to attach them to the start of each source file to most effectively
832 convey the exclusion of warranty; and each file should have at least
833 the "copyright" line and a pointer to where the full notice is found.
835 <one line to give the program's name and a brief idea of what it does.>
836 Copyright (C) <year> <name of author>
838 This program is free software; you can redistribute it and/or modify
839 it under the terms of the GNU General Public License as published by
840 the Free Software Foundation; either version 2 of the License, or
841 (at your option) any later version.
843 This program is distributed in the hope that it will be useful,
844 but WITHOUT ANY WARRANTY; without even the implied warranty of
845 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
846 GNU General Public License for more details.
848 You should have received a copy of the GNU General Public License along
849 with this program; if not, write to the Free Software Foundation, Inc.,
850 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
852 Also add information on how to contact you by electronic and paper mail.
854 If the program is interactive, make it output a short notice like this
855 when it starts in an interactive mode:
857 Gnomovision version 69, Copyright (C) year name of author
858 Gnomovision comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
859 This is free software, and you are welcome to redistribute it
860 under certain conditions; type `show c' for details.
862 The hypothetical commands `show w' and `show c' should show the appropriate
863 parts of the General Public License. Of course, the commands you use may
864 be called something other than `show w' and `show c'; they could even be
865 mouse-clicks or menu items--whatever suits your program.
867 You should also get your employer (if you work as a programmer) or your
868 school, if any, to sign a "copyright disclaimer" for the program, if
869 necessary. Here is a sample; alter the names:
871 Yoyodyne, Inc., hereby disclaims all copyright interest in the program
872 `Gnomovision' (which makes passes at compilers) written by James Hacker.
874 <signature of Ty Coon>, 1 April 1989
875 Ty Coon, President of Vice
877 This General Public License does not permit incorporating your program into
878 proprietary programs. If your program is a subroutine library, you may
879 consider it more useful to permit linking proprietary applications with the
880 library. If this is what you want to do, use the GNU Lesser General
881 Public License instead of this License.
883 2. Trajectory file reading using VMD plugins
884 ============================================
886 Files: src/external/vmd_molfile/
887 src/gromacs/fileio/vmdio.c
889 (C) Copyright 1995-2009 The Board of Trustees of the
890 University of Illinois
893 Developed by: Theoretical and Computational Biophysics Group
894 University of Illinois at Urbana-Champaign
895 http://www.ks.uiuc.edu/
897 Permission is hereby granted, free of charge, to any person obtaining a copy of
898 this software and associated documentation files (the Software), to deal with
899 the Software without restriction, including without limitation the rights to
900 use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies
901 of the Software, and to permit persons to whom the Software is furnished to
902 do so, subject to the following conditions:
904 Redistributions of source code must retain the above copyright notice,
905 this list of conditions and the following disclaimers.
907 Redistributions in binary form must reproduce the above copyright notice,
908 this list of conditions and the following disclaimers in the documentation
909 and/or other materials provided with the distribution.
911 Neither the names of Theoretical and Computational Biophysics Group,
912 University of Illinois at Urbana-Champaign, nor the names of its contributors
913 may be used to endorse or promote products derived from this Software without
914 specific prior written permission.
916 THE SOFTWARE IS PROVIDED AS IS, WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
917 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
918 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
919 THE CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR
920 OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE,
921 ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
922 OTHER DEALINGS WITH THE SOFTWARE.
924 3. Internal FFT (ffpack)
925 ========================
927 Files: src/external/fftpack/fftpack.c
929 Copyright (c) 2005-2011, NumPy Developers.
932 Redistribution and use in source and binary forms, with or without
933 modification, are permitted provided that the following conditions are
936 * Redistributions of source code must retain the above copyright
937 notice, this list of conditions and the following disclaimer.
939 * Redistributions in binary form must reproduce the above
940 copyright notice, this list of conditions and the following
941 disclaimer in the documentation and/or other materials provided
942 with the distribution.
944 * Neither the name of the NumPy Developers nor the names of any
945 contributors may be used to endorse or promote products derived
946 from this software without specific prior written permission.
948 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
949 "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
950 LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
951 A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
952 OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
953 SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
954 LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
955 DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
956 THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
957 (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
958 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
960 fftpack.c : A set of FFT routines in C.
961 Algorithmically based on Fortran-77 FFTPACK by Paul N. Swarztrauber (Version 4, 1985).
963 4. The memtestG80 library
964 =========================
966 Files: src/gromacs/gmxlib/gpu_utils/memtestG80_core.*
968 The memtestG80 library, written by Imran Haque, is Copyright 2009 Stanford University,
969 covered by the LGPL license. It may be used under the following terms:
971 IN NO EVENT SHALL STANFORD UNIVERSITY BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT,
972 SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF
973 THE USE OF THIS SOFTWARE AND ITS DOCUMENTATION, EVEN IF STANFORD UNIVERSITY HAS BEEN
974 ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
976 STANFORD UNIVERSITY SPECIFICALLY DISCLAIMS ANY WARRANTIES, INCLUDING, BUT NOT LIMITED
977 TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE.
978 THE SOFTWARE AND ACCOMPANYING DOCUMENTATION PROVIDED HEREUNDER IS PROVIDED "AS IS".
979 Folding@home HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS,
984 You may use this software on a computer system only if you own the system or have the
985 written permission of the owner.
987 You may not alter the software or associated data files.
989 Certain builds of this software incorporate by linkage code from the libintl
990 and libiconv libraries, which are covered by the Library GNU Public License,
991 available at http://www.gnu.org/licenses/lgpl-3.0.txt.
996 Files: src/gromacs/legacyheaders/thread_mpi/
997 src/gromacs/gmxlib/thread_mpi/
999 Copyright (c) 2009-2012, Sander Pronk & Erik Lindahl.
1000 All rights reserved.
1002 Redistribution and use in source and binary forms, with or without
1003 modification, are permitted provided that the following conditions are met:
1004 1) Redistributions of source code must retain the above copyright
1005 notice, this list of conditions and the following disclaimer.
1006 2) Redistributions in binary form must reproduce the above copyright
1007 notice, this list of conditions and the following disclaimer in the
1008 documentation and/or other materials provided with the distribution.
1009 3) Neither the name of the <organization> nor the
1010 names of its contributors may be used to endorse or promote products
1011 derived from this software without specific prior written permission.
1013 THIS SOFTWARE IS PROVIDED BY US ''AS IS'' AND ANY
1014 EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
1015 WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
1016 DISCLAIMED. IN NO EVENT SHALL <copyright holder> BE LIABLE FOR ANY
1017 DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
1018 (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
1019 LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
1020 ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
1021 (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
1022 SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
1024 If you want to redistribute modifications, please consider that
1025 scientific software is very special. Version control is crucial -
1026 bugs must be traceable. We will be happy to consider code for
1027 inclusion in the official distribution, but derived work should not
1028 be called official thread_mpi.
1033 These files are semi-automatic translations by f2c from the original netlib BLAS library.
1034 The source has been modified to (mostly) use modern C formatting, and to get rid of
1035 compiler warnings. Any errors in doing this should be blamed on the Gromacs developers, and
1036 not the reference BLAS implementation.
1038 The reference BLAS implementation is available from http://www.netlib.org/blas
1040 BLAS does not come with a formal named "license", but a general statement that
1042 "The reference BLAS is a freely-available software package. It is available from netlib
1043 via anonymous ftp and the World Wide Web. Thus, it can be included in commercial software
1044 packages (and has been). We only ask that proper credit be given to the authors."
1046 While the rest of Gromacs is LGPL, we think it's only fair to give you the same rights to
1047 our modified BLAS files as the original netlib versions, so do what you want with them.
1048 However, be warned that we have only tested that they to the right thing in the cases used
1049 in Gromacs (primarily full & sparse matrix diagonalization), so in most cases it is a much
1050 better idea to use the full reference implementation.
1052 Erik Lindahl, 2008-10-07.
1057 These files are semi-automatic translations by f2c from the original netlib LAPACK library.
1058 The source has been modified to (mostly) use modern C formatting, and to get rid of
1059 compiler warnings. Any errors in doing this should be blamed on the Gromacs developers, and
1060 not the reference LAPACK implementation.
1062 The reference LAPACK implementation is available from http://www.netlib.org/lapack
1064 LAPACK does not come with a formal named "license", but a general statement saying:
1066 "The reference LAPACK is a freely-available software package. It is available from netlib
1067 via anonymous ftp and the World Wide Web. Thus, it can be included in commercial software
1068 packages (and has been). We only ask that proper credit be given to the authors."
1070 While the rest of Gromacs is LGPL, we think it's only fair to give you the same rights to
1071 our modified LAPACK files as the original netlib versions, so do what you want with them.
1073 However, be warned that we have only tested that they to the right thing in the cases used
1074 in Gromacs (primarily full & sparse matrix diagonalization), so in most cases it is a much
1075 better idea to use the full reference implementation.
1077 Erik Lindahl, 2008-10-07.
1079 8. Subset of Boost C++ library
1080 ==============================
1082 Files: src/external/boost/boost/*
1084 Boost Software License - Version 1.0 - August 17th, 2003
1086 Permission is hereby granted, free of charge, to any person or organization
1087 obtaining a copy of the software and accompanying documentation covered by
1088 this license (the "Software") to use, reproduce, display, distribute,
1089 execute, and transmit the Software, and to prepare derivative works of the
1090 Software, and to permit third-parties to whom the Software is furnished to
1091 do so, all subject to the following:
1093 The copyright notices in the Software and this entire statement, including
1094 the above license grant, this restriction and the following disclaimer,
1095 must be included in all copies of the Software, in whole or in part, and
1096 all derivative works of the Software, unless such copies or derivative
1097 works are solely in the form of machine-executable object code generated by
1098 a source language processor.
1100 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
1101 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
1102 FITNESS FOR A PARTICULAR PURPOSE, TITLE AND NON-INFRINGEMENT. IN NO EVENT
1103 SHALL THE COPYRIGHT HOLDERS OR ANYONE DISTRIBUTING THE SOFTWARE BE LIABLE
1104 FOR ANY DAMAGES OR OTHER LIABILITY, WHETHER IN CONTRACT, TORT OR OTHERWISE,
1105 ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
1106 DEALINGS IN THE SOFTWARE.
1108 9. Google Test and Google Mock
1109 ===============================
1111 Files: src/external/gmock-1.6.0/*
1113 Copyright 2008, Google Inc.
1114 All rights reserved.
1116 Redistribution and use in source and binary forms, with or without
1117 modification, are permitted provided that the following conditions are
1120 * Redistributions of source code must retain the above copyright
1121 notice, this list of conditions and the following disclaimer.
1122 * Redistributions in binary form must reproduce the above
1123 copyright notice, this list of conditions and the following disclaimer
1124 in the documentation and/or other materials provided with the
1126 * Neither the name of Google Inc. nor the names of its
1127 contributors may be used to endorse or promote products derived from
1128 this software without specific prior written permission.
1130 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
1131 "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
1132 LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
1133 A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
1134 OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
1135 SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
1136 LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
1137 DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
1138 THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
1139 (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
1140 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.