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Difference between revisions of "Apbsplugin"
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== References and LICENSES == | == References and LICENSES == | ||
=== APBS === | === APBS === | ||
| − | Please acknowledge | + | When using the APBS, you are "obligated" to register your use of the software. This will the authors able to require funding for further development.<br> |
| + | Register here, it takes 1 minutes: http://www.poissonboltzmann.org/apbs/downloads | ||
| + | |||
| + | Please acknowledge your use of APBS by citing: <br> | ||
Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. ''Electrostatics of nanosystems: application to microtubules and the ribosome.'' | Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. ''Electrostatics of nanosystems: application to microtubules and the ribosome.'' | ||
'''Proc. Natl. Acad. Sci. USA 98''', 10037-10041 2001. [http://dx.doi.org/10.1073/pnas.181342398 doi:10.1073/pnas.181342398] | '''Proc. Natl. Acad. Sci. USA 98''', 10037-10041 2001. [http://dx.doi.org/10.1073/pnas.181342398 doi:10.1073/pnas.181342398] | ||
| − | + | Please acknowledge your use of the Holst group software by citing: <br> | |
| − | + | M. Holst and F. Saied, ''Multigrid solution of the Poisson-Boltzmann equation.'' '''J. Comput. Chem. 14''', 105-113, 1993. <br> | |
| − | + | M. Holst and F. Saied, ''Numerical solution of the nonlinear Poisson-Boltzmann equation: Developing more robust and efficient methods.'' '''J. Comput. Chem.''' 16, 337-364, 1995. <br> | |
| + | For PMG (the multigrid solver): <br> | ||
| + | M. Holst, ''Adaptive numerical treatment of elliptic systems on manifolds.'' '''Advances in Computational Mathematics 15''', 139-191, 2001. [http://dx.doi.org/10.1023/A:1014246117321 doi:10.1023/A:1014246117321] <br> | ||
| + | For FEtk (the finite element solver): <br> | ||
| + | R. Bank and M. Holst, ''A New Paradigm for Parallel Adaptive Meshing Algorithms.'' '''SIAM Review 45''', 291-323, 2003. [http://dx.doi.org/10.1137/S003614450342061 | ||
| + | doi:10.1137/S003614450342061] | ||
=== MALOC === | === MALOC === | ||
Revision as of 10:28, 6 December 2011
Software requirements
Register use of the software. This will the authors able to require funding for further development.
Register here, it takes 1 minutes: http://www.poissonboltzmann.org/apbs/downloads
Windows
Download APBS.msi from: http://sourceforge.net/projects/apbs/files/apbs/
Ubuntu
APBS are in the repository: http://packages.ubuntu.com/search?keywords=apbs
MALOC are in the repository: http://packages.ubuntu.com/search?keywords=libmaloc1
References and LICENSES
APBS
When using the APBS, you are "obligated" to register your use of the software. This will the authors able to require funding for further development.
Register here, it takes 1 minutes: http://www.poissonboltzmann.org/apbs/downloads
Please acknowledge your use of APBS by citing:
Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome.
Proc. Natl. Acad. Sci. USA 98, 10037-10041 2001. doi:10.1073/pnas.181342398
Please acknowledge your use of the Holst group software by citing:
M. Holst and F. Saied, Multigrid solution of the Poisson-Boltzmann equation. J. Comput. Chem. 14, 105-113, 1993.
M. Holst and F. Saied, Numerical solution of the nonlinear Poisson-Boltzmann equation: Developing more robust and efficient methods. J. Comput. Chem. 16, 337-364, 1995.
For PMG (the multigrid solver):
M. Holst, Adaptive numerical treatment of elliptic systems on manifolds. Advances in Computational Mathematics 15, 139-191, 2001. doi:10.1023/A:1014246117321
For FEtk (the finite element solver):
R. Bank and M. Holst, A New Paradigm for Parallel Adaptive Meshing Algorithms. SIAM Review 45, 291-323, 2003. [http://dx.doi.org/10.1137/S003614450342061
doi:10.1137/S003614450342061]
MALOC
Please acknowledge the use of MALOC and FETK by citing:
M. Holst, Adaptive numerical treatment of elliptic systems on manifolds. Advances in Computational Mathematics, 15 (2001), pp. 139-191.
Copyright and Terms of Use:
GNU General Public License: http://www.gnu.org/copyleft/gpl.html
This version of MALOC is distributed under the following guidelines:
MALOC (Minimal Abstraction Layer for Object-oriented C)
Copyright (C) 1994-2010 Michael Holst
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 2 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, write to the Free Software Foundation, Inc., 675 Mass Ave, Cambridge, MA 02139, USA.