Skip to content
Snippets Groups Projects
Commit e14db00d authored by Steve Plimpton's avatar Steve Plimpton
Browse files

doc link adjustments

parent c3ece2f0
No related branches found
No related tags found
No related merge requests found
......@@ -24,10 +24,10 @@ by subtracting out the streaming velocity of the shearing atoms. The
velocity profile or other properties of the fluid can be monitored via
the "fix ave/chunk"_fix_ave_chunk.html command.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis2 discusses
use of the SLLOD method and non-equilibrium MD (NEMD) thermosttating
generally, for both simple and complex fluids, e.g. molecular systems.
The latter can be tricky to do correctly.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis-nemd
discusses use of the SLLOD method and non-equilibrium MD (NEMD)
thermosttating generally, for both simple and complex fluids,
e.g. molecular systems. The latter can be tricky to do correctly.
As discussed in the previous section on non-orthogonal simulation
boxes, the amount of tilt or skew that can be applied is limited by
......@@ -54,6 +54,6 @@ using the "fix flow/gauss"_fix_flow_gauss.html command.
:line
:link(Daivis2)
:link(Daivis-nemd)
[(Daivis and Todd)] Daivis and Todd, Nonequilibrium Molecular Dyanmics (book),
Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017).
......@@ -43,10 +43,10 @@ nvt/asphere"_fix_nvt_asphere.html thermostat not only translation
velocities but also rotational velocities for spherical and aspherical
particles.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis2 discusses
use of the SLLOD method and non-equilibrium MD (NEMD) thermosttating
generally, for both simple and complex fluids, e.g. molecular systems.
The latter can be tricky to do correctly.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis-thermostat
discusses use of the SLLOD method and non-equilibrium MD (NEMD)
thermosttating generally, for both simple and complex fluids,
e.g. molecular systems. The latter can be tricky to do correctly.
DPD thermostatting alters pairwise interactions in a manner analogous
to the per-particle thermostatting of "fix
......@@ -95,6 +95,6 @@ temperature compute is used for default thermodynamic output.
:line
:link(Daivis2)
:link(Daivis-thermostat)
[(Daivis and Todd)] Daivis and Todd, Nonequilibrium Molecular Dyanmics (book),
Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017).
......@@ -37,10 +37,10 @@ used to shear the fluid in between them, again with some kind of
thermostat that modifies only the thermal (non-shearing) components of
velocity to prevent the fluid from heating up.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis2 discusses
use of the SLLOD method and non-equilibrium MD (NEMD) thermosttating
generally, for both simple and complex fluids, e.g. molecular systems.
The latter can be tricky to do correctly.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis-viscosity
discusses use of the SLLOD method and non-equilibrium MD (NEMD)
thermosttating generally, for both simple and complex fluids,
e.g. molecular systems. The latter can be tricky to do correctly.
In both cases, the velocity profile setup in the fluid by this
procedure can be monitored by the "fix ave/chunk"_fix_ave_chunk.html
......@@ -139,6 +139,6 @@ with time at sufficiently long times.
:line
:link(Daivis2)
:link(Daivis-viscosity)
[(Daivis and Todd)] Daivis and Todd, Nonequilibrium Molecular Dyanmics (book),
Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017).
......@@ -63,10 +63,10 @@ implemented in LAMMPS, they are coupled to a Nose/Hoover chain
thermostat in a velocity Verlet formulation, closely following the
implementation used for the "fix nvt"_fix_nh.html command.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis2 discusses
use of the SLLOD method and non-equilibrium MD (NEMD) thermosttating
generally, for both simple and complex fluids, e.g. molecular systems.
The latter can be tricky to do correctly.
NOTE: A recent (2017) book by "(Daivis and Todd)"_#Daivis-sllod
discusses use of the SLLOD method and non-equilibrium MD (NEMD)
thermosttating generally, for both simple and complex fluids,
e.g. molecular systems. The latter can be tricky to do correctly.
Additional parameters affecting the thermostat are specified by
keywords and values documented with the "fix nvt"_fix_nh.html
......@@ -183,6 +183,6 @@ Same as "fix nvt"_fix_nh.html, except tchain = 1.
:link(Daivis)
[(Daivis and Todd)] Daivis and Todd, J Chem Phys, 124, 194103 (2006).
:link(Daivis2)
:link(Daivis-sllod)
[(Daivis and Todd)] Daivis and Todd, Nonequilibrium Molecular Dyanmics (book),
Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017).
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment