From adc94ddaef0982da7fb7a3390e4d2d9b1fa95166 Mon Sep 17 00:00:00 2001 From: sjplimp Date: Tue, 21 Jul 2015 22:48:09 +0000 Subject: [PATCH] git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13659 f3b2605a-c512-4ea7-a41b-209d697bcdaa --- doc/atom_modify.html | 2 +- doc/atom_modify.txt | 2 +- doc/neigh_modify.html | 2 +- doc/neigh_modify.txt | 2 +- doc/neighbor.html | 8 ++++---- doc/neighbor.txt | 8 ++++---- 6 files changed, 12 insertions(+), 12 deletions(-) diff --git a/doc/atom_modify.html b/doc/atom_modify.html index 656c240e33..7dc0ab5a74 100644 --- a/doc/atom_modify.html +++ b/doc/atom_modify.html @@ -99,7 +99,7 @@ small fraction of all the atoms, and there are other operations LAMMPS is performing that will be sped-up significantly by being able to loop over the smaller set of atoms. Otherwise the reordering required by this option will be a net slow-down. The neigh_modify -include and communicate group +include and comm_modify group commands are two examples of commands that require this setting to work efficiently. Several fixes, most notably time integration fixes like fix nve, also take advantage of diff --git a/doc/atom_modify.txt b/doc/atom_modify.txt index a7de56ad12..d863e44381 100644 --- a/doc/atom_modify.txt +++ b/doc/atom_modify.txt @@ -93,7 +93,7 @@ small fraction of all the atoms, and there are other operations LAMMPS is performing that will be sped-up significantly by being able to loop over the smaller set of atoms. Otherwise the reordering required by this option will be a net slow-down. The "neigh_modify -include"_neigh_modify.html and "communicate group"_communicate.html +include"_neigh_modify.html and "comm_modify group"_comm_modify.html commands are two examples of commands that require this setting to work efficiently. Several "fixes"_fix.html, most notably time integration fixes like "fix nve"_fix_nve.html, also take advantage of diff --git a/doc/neigh_modify.html b/doc/neigh_modify.html index c2e60a0aca..38e8f15f64 100644 --- a/doc/neigh_modify.html +++ b/doc/neigh_modify.html @@ -103,7 +103,7 @@ nearby periodic images. The only way this should happen is if the pairwise cutoff is so short that atoms that are part of the same interaction are not communicated as ghost atoms. This is an unusual model (e.g. no pair interactions at all) and the problem can be fixed -by use of the communicate cutoff command. Note +by use of the comm_modify cutoff command. Note that to save time, the default cluster setting is no, so that this check is not performed.

diff --git a/doc/neigh_modify.txt b/doc/neigh_modify.txt index 42aade146b..bffc055ce2 100644 --- a/doc/neigh_modify.txt +++ b/doc/neigh_modify.txt @@ -98,7 +98,7 @@ nearby periodic images. The only way this should happen is if the pairwise cutoff is so short that atoms that are part of the same interaction are not communicated as ghost atoms. This is an unusual model (e.g. no pair interactions at all) and the problem can be fixed -by use of the "communicate cutoff"_communicate.html command. Note +by use of the "comm_modify cutoff"_comm_modify.html command. Note that to save time, the default {cluster} setting is {no}, so that this check is not performed. diff --git a/doc/neighbor.html b/doc/neighbor.html index 6efb251466..9618531ee0 100644 --- a/doc/neighbor.html +++ b/doc/neighbor.html @@ -58,9 +58,9 @@ other type pairs have a much shorter cutoff. For style multi the bin size is set to 1/2 of the shortest cutoff distance and multiple sets of bins are defined to search over for different atom types. This imposes some extra setup overhead, but the searches themselves -may be much faster for the short-cutoff cases. See the communicate -multi command for a communication option option that -may also be beneficial for simulations of this kind. +may be much faster for the short-cutoff cases. See the comm_modify +mode multi command for a communication option option +that may also be beneficial for simulations of this kind.

The neigh_modify command has additional options that control how often neighbor lists are built and which pairs are @@ -76,7 +76,7 @@ section for details.

Related commands:

neigh_modify, units, -communicate +comm_modify

Default:

diff --git a/doc/neighbor.txt b/doc/neighbor.txt index e30fb41d0a..b73b893cb2 100644 --- a/doc/neighbor.txt +++ b/doc/neighbor.txt @@ -55,9 +55,9 @@ other type pairs have a much shorter cutoff. For style {multi} the bin size is set to 1/2 of the shortest cutoff distance and multiple sets of bins are defined to search over for different atom types. This imposes some extra setup overhead, but the searches themselves -may be much faster for the short-cutoff cases. See the "communicate -multi"_communicate.html command for a communication option option that -may also be beneficial for simulations of this kind. +may be much faster for the short-cutoff cases. See the "comm_modify +mode multi"_comm_modify.html command for a communication option option +that may also be beneficial for simulations of this kind. The "neigh_modify"_neigh_modify.html command has additional options that control how often neighbor lists are built and which pairs are @@ -73,7 +73,7 @@ section"_Section_start.html#start_8 for details. [Related commands:] "neigh_modify"_neigh_modify.html, "units"_units.html, -"communicate"_communicate.html +"comm_modify"_cmom_modify.html [Default:]