[gmx-users] atomtypes, parameters in file do not match parameters in manual
Mark.Abraham at anu.edu.au
Fri Apr 4 15:27:20 CEST 2008
Andreas Kring wrote:
> Hello all.
> I'm new to Gromacs, so sorry for this (probably naive) question:
> In Table 5.3 in the Gromacs manual version 3.3, the parameters for
> [atomtypes] are: atom type, mass, charge, particle type, V and W.
> In the Gromacs directory containing the the force fields
> (/usr/local/gromacs/share/gromacs/top on my machine) the ffoplsaanb.itp
> file begins with the following lines:
> [ atomtypes ]
> ; full atom descriptions are available in ffoplsaa.atp
> ; name bond_type mass charge ptype sigma epsilon
> opls_001 C 6 12.01100 0.500 A 3.75000e-01
> 4.39320e-01 ; SIG
> Why do the manual parameters not match the parameters in the file?
> Which of the two are correct?
There's an undocumented feature where the fields in an [ atomtypes ]
line follow one of several possible formats and grompp is smart about
working one which field means what.
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