From 527b91492cee316cc15ffa070c5536644fa05930 Mon Sep 17 00:00:00 2001 From: sjplimp Date: Thu, 15 May 2014 13:18:56 +0000 Subject: [PATCH] git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@11994 f3b2605a-c512-4ea7-a41b-209d697bcdaa --- doc/compute_gyration.html | 3 ++- doc/compute_gyration.txt | 3 ++- doc/compute_gyration_molecule.html | 3 ++- doc/compute_gyration_molecule.txt | 3 ++- doc/delete_atoms.html | 11 ++++++----- doc/delete_atoms.txt | 11 ++++++----- 6 files changed, 20 insertions(+), 14 deletions(-) diff --git a/doc/compute_gyration.html b/doc/compute_gyration.html index a974a9898e..fb340c4719 100644 --- a/doc/compute_gyration.html +++ b/doc/compute_gyration.html @@ -62,7 +62,8 @@ options.

The scalar and vector values calculated by this compute are "intensive". The scalar and vector values will be in distance -units. +units, since they are the square root of values +represented by the formula above.

Restrictions: none

diff --git a/doc/compute_gyration.txt b/doc/compute_gyration.txt index 6661fb439a..c704bbdf3d 100644 --- a/doc/compute_gyration.txt +++ b/doc/compute_gyration.txt @@ -59,7 +59,8 @@ options. The scalar and vector values calculated by this compute are "intensive". The scalar and vector values will be in distance -"units"_units.html. +"units"_units.html, since they are the square root of values +represented by the formula above. [Restrictions:] none diff --git a/doc/compute_gyration_molecule.html b/doc/compute_gyration_molecule.html index c9dfe19408..e8b1e52e30 100644 --- a/doc/compute_gyration_molecule.html +++ b/doc/compute_gyration_molecule.html @@ -88,7 +88,8 @@ options.

All the vector or array values calculated by this compute are "intensive". The vector or array values will be in distance -units. +units, since they are the square root of values +represented by the formula above.

Restrictions: none

diff --git a/doc/compute_gyration_molecule.txt b/doc/compute_gyration_molecule.txt index 74a7c7833e..82647137ab 100644 --- a/doc/compute_gyration_molecule.txt +++ b/doc/compute_gyration_molecule.txt @@ -80,7 +80,8 @@ options. All the vector or array values calculated by this compute are "intensive". The vector or array values will be in distance -"units"_units.html. +"units"_units.html, since they are the square root of values +represented by the formula above. [Restrictions:] none diff --git a/doc/delete_atoms.html b/doc/delete_atoms.html index 28db4152ec..3effb64590 100644 --- a/doc/delete_atoms.html +++ b/doc/delete_atoms.html @@ -90,11 +90,12 @@ number of atoms in the system. This is not done for molecular systems has already been assigned.

It the mol keyword is set to yes, then for every atom that is -deleted, all other atoms in the same molecule will also be deleted. -This is a way to insure that entire molecules are deleted instead of -only a subset of atoms in the molecule which will typically lead to -errors because of bond, angle, or dihedral interactions stored by -remaining atoms which reference deleted atoms. +deleted, all other atoms in the same molecule (i.e. with the same +molecule ID) will also be deleted. This is a way to insure that +entire molecules are deleted instead of only a subset of atoms in the +molecule which will typically lead to errors because of bond, angle, +or dihedral interactions stored by remaining atoms which reference +deleted atoms.

IMPORTANT NOTE: The molecule deletion operation in invoked after all individual atoms have been deleted using the rules described above for diff --git a/doc/delete_atoms.txt b/doc/delete_atoms.txt index d646088683..0c82ce374b 100644 --- a/doc/delete_atoms.txt +++ b/doc/delete_atoms.txt @@ -82,11 +82,12 @@ number of atoms in the system. This is not done for molecular systems has already been assigned. It the {mol} keyword is set to {yes}, then for every atom that is -deleted, all other atoms in the same molecule will also be deleted. -This is a way to insure that entire molecules are deleted instead of -only a subset of atoms in the molecule which will typically lead to -errors because of bond, angle, or dihedral interactions stored by -remaining atoms which reference deleted atoms. +deleted, all other atoms in the same molecule (i.e. with the same +molecule ID) will also be deleted. This is a way to insure that +entire molecules are deleted instead of only a subset of atoms in the +molecule which will typically lead to errors because of bond, angle, +or dihedral interactions stored by remaining atoms which reference +deleted atoms. IMPORTANT NOTE: The molecule deletion operation in invoked after all individual atoms have been deleted using the rules described above for