more manual spelling fixes

{Big particle in fix srd cannot be point particle} :dt

Big particles must be extended spheriods or ellipsoids. :dd

Big particles must be extended spheroids or ellipsoids. :dd

{Bigint setting in lmptype.h is invalid} :dt

Self-explanatory. :dd

{Cannot change box z boundary to nonperiodic for a 2d simulation} :dt

{Cannot change box z boundary to non-periodic for a 2d simulation} :dt

Self-explanatory. :dd

You cannot reset the timestep when a fix that keeps track of elapsed

time is in place. :dd

{Cannot run 2d simulation with nonperiodic Z dimension} :dt

{Cannot run 2d simulation with non-periodic Z dimension} :dt

Use the boundary command to make the z dimension periodic in order to

run a 2d simulation. :dd

Fix setforce cannot be used in this manner.  Use fix addforce

instead. :dd

{Cannot use nonperiodic boundares with fix ttm} :dt

{Cannot use non-periodic boundares with fix ttm} :dt

This fix requires a fully periodic simulation box. :dd

{Cannot use nonperiodic boundaries with Ewald} :dt

{Cannot use non-periodic boundaries with Ewald} :dt

For kspace style ewald, all 3 dimensions must have periodic boundaries

unless you use the kspace_modify command to define a 2d slab with a

non-periodic z dimension. :dd

{Cannot use nonperiodic boundaries with EwaldDisp} :dt

{Cannot use non-periodic boundaries with EwaldDisp} :dt

For kspace style ewald/disp, all 3 dimensions must have periodic

boundaries unless you use the kspace_modify command to define a 2d

slab with a non-periodic z dimension. :dd

{Cannot use nonperiodic boundaries with PPPM} :dt

{Cannot use non-periodic boundaries with PPPM} :dt

For kspace style pppm, all 3 dimensions must have periodic boundaries

unless you use the kspace_modify command to define a 2d slab with a

non-periodic z dimension. :dd

{Cannot use nonperiodic boundaries with PPPMDisp} :dt

{Cannot use non-periodic boundaries with PPPMDisp} :dt

For kspace style pppm/disp, all 3 dimensions must have periodic

boundaries unless you use the kspace_modify command to define a 2d

{Package command after simulation box is defined} :dt

The package command cannot be used afer a read_data, read_restart, or

The package command cannot be used after a read_data, read_restart, or

create_box command. :dd

{Package gpu command without GPU package installed} :dt

We do want the pressure to correspond to the whole system, but we want

the temperature to correspond to the fix group only.  We must then use

the {fix_modify} command for this.  In the end, the block of

instructions for thermostating and barostating will look like

instructions for thermostating and barostatting will look like

compute TATOMS ATOMS temp

fix DIRECT all drude/transform/direct

definition of finite-size particles: sphere, dipole, ellipsoid, line,

tri, peri, and body.

The sphere style defines particles that are spheriods and each

The sphere style defines particles that are spheroids and each

particle can have a unique diameter and mass (or density).  These

particles store an angular velocity (omega) and can be acted upon by

torque.  The "set" command can be used to modify the diameter and mass

directly inside of LAMMPS by interfacing to the VMD molfile plugins.

The "rerun"_rerun.html command also allows to do some post-processing

of existing trajectories, and through being able to read a variety

of file formats, this can also be used for analysing trajectories

of file formats, this can also be used for analyzing trajectories

from other MD codes.  Some post-processing tools packaged with

LAMMPS will do these conversions.  Scripts provided in the

tools/python directory can extract and massage data in dump files to

[Contents:]

The fix plumed command allows you to use the PLUMED free energy plugin

for molecular dynamics to analyse and bias your LAMMPS trajectory on

for molecular dynamics to analyze and bias your LAMMPS trajectory on

the fly.  The PLUMED library is called from within the LAMMPS input

script by using the "fix plumed _fix_plumed.html command.