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  1. vytautas@debian:~/MD/hCA2-lig_Juri$ ~/bin/gromacs/gromacs-4.6.3/src/tools/g_lie -f md.edr -o lie.xvg -ligand SUA
  2. :-) G R O M A C S (-:
  3.  
  4. Georgetown Riga Oslo Madrid Amsterdam Chisinau Stockholm
  5.  
  6. :-) VERSION 4.6.3 (-:
  7.  
  8. Contributions from Mark Abraham, Emile Apol, Rossen Apostolov,
  9. Herman J.C. Berendsen, Aldert van Buuren, PƤr Bjelkmar,
  10. Rudi van Drunen, Anton Feenstra, Gerrit Groenhof, Christoph Junghans,
  11. Peter Kasson, Carsten Kutzner, Per Larsson, Pieter Meulenhoff,
  12. Teemu Murtola, Szilard Pall, Sander Pronk, Roland Schulz,
  13. Michael Shirts, Alfons Sijbers, Peter Tieleman,
  14.  
  15. Berk Hess, David van der Spoel, and Erik Lindahl.
  16.  
  17. Copyright (c) 1991-2000, University of Groningen, The Netherlands.
  18. Copyright (c) 2001-2012,2013, The GROMACS development team at
  19. Uppsala University & The Royal Institute of Technology, Sweden.
  20. check out http://www.gromacs.org for more information.
  21.  
  22. This program is free software; you can redistribute it and/or
  23. modify it under the terms of the GNU Lesser General Public License
  24. as published by the Free Software Foundation; either version 2.1
  25. of the License, or (at your option) any later version.
  26.  
  27. :-) /home/vytautas/bin/gromacs/gromacs-4.6.3/src/tools/g_lie (-:
  28.  
  29. Option Filename Type Description
  30. ------------------------------------------------------------
  31. -f md.edr Input Energy file
  32. -o lie.xvg Output xvgr/xmgr file
  33.  
  34. Option Type Value Description
  35. ------------------------------------------------------
  36. -[no]h bool no Print help info and quit
  37. -[no]version bool no Print version info and quit
  38. -nice int 19 Set the nicelevel
  39. -b time 0 First frame (ps) to read from trajectory
  40. -e time 0 Last frame (ps) to read from trajectory
  41. -dt time 0 Only use frame when t MOD dt = first time (ps)
  42. -[no]w bool no View output .xvg, .xpm, .eps and .pdb files
  43. -xvg enum xmgrace xvg plot formatting: xmgrace, xmgr or none
  44. -Elj real 0 Lennard-Jones interaction between ligand and
  45. solvent
  46. -Eqq real 0 Coulomb interaction between ligand and solvent
  47. -Clj real 0.181 Factor in the LIE equation for Lennard-Jones
  48. component of energy
  49. -Cqq real 0.5 Factor in the LIE equation for Coulomb component
  50. of energy
  51. -ligand string SUA Name of the ligand in the energy file
  52.  
  53. Opened md.edr as single precision energy file
  54. Using the following energy terms:
  55. LJ:
  56. Coul:
  57. Last energy frame read 189 time 378.000
  58. DGbind = 0.000 (0.000)
  59.  
  60. gcq#283: "'Nay. We are but men.' Rock!" (Tenacious D)
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