fully integrate temper/npt command into manual

"dump vtk"_dump_vtk.html,

"group2ndx"_group2ndx.html,

"ndx2group"_group2ndx.html,

"temper/grem"_temper_grem.html :tb(c=3,ea=c)

"temper/grem"_temper_grem.html

"temper/npt"_temper_npt.html :tb(c=3,ea=c)

:line

   tad

   temper

   temper_grem

   temper_npt

   thermo

   thermo_modify

   thermo_style

tad.html

temper.html

temper_grem.html

temper_npt.html

thermo.html

thermo_modify.html

thermo_style.html

USER/atc/man_unfix_nodes.html

USER/atc/man_write_atom_weights.html

USER/atc/man_write_restart.html

[Description:]

Run a parallel tempering or replica exchange simulation using multiple replicas (ensembles) of a system in the isothermal-isobaric (NPT) ensemble. The command temper/npt works like "temper"_temper.html but is designed for the NPT ensemble instead of the canonical (NVT) ensemble and allows for pressure to be set in the ensembles. The multiple ensembles can run in parallel at different temperatures or different pressures. The acceptance criteria for temper/npt is specific to the NPT ensemble and can be found in references "(Okabe)"_#Okabe and "(Mori)"_#Mori. 

Apart from the difference in acceptance criteria and the specification of pressure, this command works much like the "temper"_temper.html command. See the documentation on "temper"_temper.html for information on how the parallel tempering is handled.

Run a parallel tempering or replica exchange simulation using multiple

replicas (ensembles) of a system in the isothermal-isobaric (NPT)

ensemble.  The command temper/npt works like "temper"_temper.html but

requires running replicas in the NPT ensemble instead of the canonical

(NVT) ensemble and allows for pressure to be set in the ensembles.

These multiple ensembles can run in parallel at different temperatures

or different pressures.  The acceptance criteria for temper/npt is

specific to the NPT ensemble and can be found in references

"(Okabe)"_#Okabe2 and "(Mori)"_#Mori2.

Apart from the difference in acceptance criteria and the specification

of pressure, this command works much like the "temper"_temper.html

command. See the documentation on "temper"_temper.html for information

on how the parallel tempering is handled in general.

:line 

package.  See the "Making LAMMPS"_Section_start.html#start_3 section

for more info on packages.

This command should be used with a fix that maintains the isothermal-isobaric (NPT) ensemble.

This command should be used with a fix that maintains the

isothermal-isobaric (NPT) ensemble.

[Related commands:]