fix reaxff/bonds command¶
Accelerator Variants: reaxff/bonds/kk
fix ID group-ID reaxff/bonds Nevery filename
ID, group-ID are documented in fix command
reax/bonds = style name of this fix command
Nevery = output interval in timesteps
filename = name of output file
fix 1 all reaxff/bonds 100 bonds.reaxff
Write out the bond information computed by the ReaxFF potential specified by pair_style reaxff in the exact same format as the original stand-alone ReaxFF code of Adri van Duin. The bond information is written to filename on timesteps that are multiples of Nevery, including timestep 0. For time-averaged chemical species analysis, please see the fix reaxff/species command.
The specified group-ID is ignored by this fix.
The format of the output file should be reasonably self-explanatory. The meaning of the column header abbreviations is as follows:
id = atom id
type = atom type
nb = number of bonds
id_1 = atom id of first bond
id_nb = atom id of Nth bond
mol = molecule id
bo_1 = bond order of first bond
bo_nb = bond order of Nth bond
abo = atom bond order (sum of all bonds)
nlp = number of lone pairs
q = atomic charge
If the filename ends with “.gz”, the output file is written in gzipped format. A gzipped dump file will be about 3x smaller than the text version, but will also take longer to write.
Restart, fix_modify, output, run start/stop, minimize info¶
No information about this fix is written to binary restart files. None of the fix_modify options are relevant to this fix. No global or per-atom quantities are stored by this fix for access by various output commands. No parameter of this fix can be used with the start/stop keywords of the run command. This fix is not invoked during energy minimization.
Styles with a gpu, intel, kk, omp, or opt suffix are functionally the same as the corresponding style without the suffix. They have been optimized to run faster, depending on your available hardware, as discussed on the Speed packages doc page. The accelerated styles take the same arguments and should produce the same results, except for round-off and precision issues.
These accelerated styles are part of the GPU, INTEL, KOKKOS, OPENMP and OPT packages, respectively. They are only enabled if LAMMPS was built with those packages. See the Build package page for more info.
You can specify the accelerated styles explicitly in your input script by including their suffix, or you can use the -suffix command-line switch when you invoke LAMMPS, or you can use the suffix command in your input script.
See the Speed packages page for more instructions on how to use the accelerated styles effectively.
The fix reaxff/bonds command requires that the pair_style reaxff is invoked. This fix is part of the REAXFF package. It is only enabled if LAMMPS was built with that package. See the Build package page for more info.
To write gzipped bond files, you must compile LAMMPS with the -DLAMMPS_GZIP option.