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author | Felix Springer | 2018-10-24 00:32:51 +0200 |
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committer | Felix Springer | 2018-10-24 00:32:51 +0200 |
commit | 9ff7be51897bc50418c5070d27a234207aaa4988 (patch) | |
tree | 8246a63ab7348a45dbb3299c2efc179ebcd0da22 /COPYRIGHT | |
download | aur-9ff7be51897bc50418c5070d27a234207aaa4988.tar.gz |
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Diffstat (limited to 'COPYRIGHT')
-rw-r--r-- | COPYRIGHT | 122 |
1 files changed, 122 insertions, 0 deletions
diff --git a/COPYRIGHT b/COPYRIGHT new file mode 100644 index 000000000000..8bc2fdcfdc9a --- /dev/null +++ b/COPYRIGHT @@ -0,0 +1,122 @@ +IMOD Version 4.9.0 Copyright Notice and Credits +-------------------------------------------------------------------------- +Except as noted, ALL SOFTWARE LISTED IS Copyright (C) 1994-2017 +the Regents of the University of Colorado. + +All portions of IMOD, except as noted below, are open source under the +General Public License (GPL) version 2.0. A copy of this license is in the +file GPL.txt. (All license files referred to here are in the directory +'licenses' in the binary distribution or 'dist' in the source code.) The +libraries written entirely in C/C++ are released under the Lesser GPL (see +LGPL.txt). Software may be modified and redistributed under the terms of +these licenses. The source can be found at +http://bio3d.colorado.edu/imod/nightlyBuild +and +http://bio3d.colorado.edu/imod/openSource + +THIS SOFTWARE AND/OR DOCUMENTATION IS PROVIDED WITH NO WARRANTY, +EXPRESS OR IMPLIED, INCLUDING, WITHOUT LIMITATION, WARRANTY OF +MERCHANTABILITY AND WARRANTY OF FITNESS FOR A PARTICULAR PURPOSE. + +Arch User Repository (AUR) package is maintaned by Felix Springer. + +Programs were written by David Mastronarde, James Kremer, Rick +Gaudette, Sue Held, Quanren Xiong, and John Heumann at the University +of Colorado, some based on work and libraries from the MRC. We thank David +Agard and Hans Chen for the original MRC source code, Wah Chiu for a Unix +version of low-level MRC file routines used in the FORTRAN parts, and Chuck +Robertson for much work on the port to Linux. + +The program nad_eed_3d by Achilleas Frangakis and Reiner Hegerl is +copyright Max-Planck-Institut for Biochemistry, Martinsried, Germany. + +The LSQR routine by Michael Saunders is used in some programs. IMOD uses a +C version of LSQR and some BLAS routines from the BCLS package of Michael +Friedlander, which are covered by the Lesser GPL (see LGPL.txt). + +IMOD uses a subset of the LAPACK routines developed at Univ. of Tennessee, +Univ. of California Berkeley, NAG Ltd., Courant Institute, Argonne National +Lab, and Rice University. They are copyrighted by the University of +Tennessee and covered by a BSD-style license (see LAPACK.txt). IMOD also +uses a subset of the BLAS routines, developed by: Jack Dongarra, Argonne +National Lab; Jeremy Du Croz, NAG Ltd.; Iain Duff, AERE Harwell; Richard +Hanson, Sandia National Labs; and Sven Hammarling, NAG Ltd. + +The program imodwincpu was adapted from code obtained from +www.codeproject.com and written by Dudi Abramov. It is excluded from the +GPL license and is covered exclusively by the Code Project Open License (see +CPOL.html). + +Routines for computing some statistical functions were adapted from +S. J. Zhang and J. M. Jin, Computation of Special Functions. New York: John +Wiley & Sons, 1996 and are copyrighted by the authors and publisher. + +Andrew Noske (originally at the University of Queensland, Australia, then at +the University of California, San Diego) contributed the beadhelper, +drawingtools, interpolator, namewizard, and stereology plugins. See the help +displayed by those plugins for acknowledgements of funding for his work. + +Jane Ding at California Institute of Technology contributed the Grab with Note +plugin. + +The isosurface display in 3dmod uses contouring and surface smoothing +modules from Chimera, developed at the Resource for Biocomputing, +Visualization, and Informatics at the University of California, San +Francisco, supported by NIH/NCRR grant P41-RR01081. + +RAPTOR was developed by Fernando Amat, Farshid Moussavi, and Mark Horowitz +at Stanford University and is copyrighted by them. It is covered by the +license in RAPTORlicense.txt. It uses three libraries, parts of which are +included in the IMOD source code distribution: +OpenCV (http://sourceforge.net/projects/opencvlibrary/), +covered by the license in OpenCV.txt, +SuiteSparse (http://www.cise.ufl.edu/research/sparse/SuiteSparse/), +covered by the licenses in CSparse.txt and LGPL.txt, and +Stair Vision Library (http://sourceforge.net/projects/stairvision/), +covered by the license in StairVision.txt. + +The warping library uses modules from Pavel Sakov's 'nn' package, which are +copyrighted by Sakov and CSIRO, and covered by the license in nn.txt. The +library also uses code from Ken Clarkson's 'hull' program, which is +copyrighted by AT&T and covered by the license in hull.txt. + +Routines for solving 3x3 eigenvectors are copyrighted by Joachim Kopp and +covered by the LGPL license. + +Mauro Maiorca, at the Biochemistry & Molecular Biology Department, Bio21 +Institute, University of Melbourne, Australia, contributed the preNAD and +preNID programs. His work was supported by funding from the Australian +Research Council and the National Health and Medical Research Council. preNAD +and preNID use recursive line filter routines from Gregoire Malandain, covered +by version 3 of the GPL (see GPL-3.0.txt). + +IMOD uses TIFF libraries which are Copyright (c) 1988-1997 Sam Leffler +and Copyright (c) 1991-1997 Silicon Graphics, Inc. (see TIFF.txt). + +Because IMOD uses the libjpeg library, this software is based in part on the +work of the Independent JPEG Group. IMOD also uses the zlib library, which is +Copyright 1995-2010 by Jean-loup Gailly and Mark Adler. + +IMOD use FFTW libraries which are Copyright (c) 1997--1999 Massachusetts +Institute of Technology, written by Matteo Frigo and Steven G. Johnson, and +covered by version 2 of the GPL. + +IMOD uses HDF5 libraries which are Copyright 1998-2006 by the Board of +Trustees of the University of Illinois and Copyright 2006-2014 by The HDF +Group and covered by the license in HDF5.txt. + +The module gcvspl.c is based on an f2c translation of gcvspl.f, which was +obtained from http://www.netlib.org. gcvspl.f was written by H.J. Woltring +based on routines in Lyche et al. (1983) and other sources as documented in +gcvspl.c. + +IMOD includes a copy of the Mini-XML library which is Copyright 2003-2016 by +Michael R. Sweet and is covered by the modified Library GPL in Mini-XML.txt + +This work was supported in the past by NIH P41 grants from NCRR and NIGMS to +J. Richard McIntosh and Andreas Hoenger; and by NIBIB grant EB005027 to +David Mastronarde. + +Contact: mast at colorado dot edu + www: http://bio3d.colorado.edu/imod/index.html + University of Colorado, Dept. of MCD Biology, 347 UCB, Boulder, CO 80309 |