From e922a38bb87f9062ac9d6fd2cfcd63ee31e7cbc7 Mon Sep 17 00:00:00 2001 From: sjplimp Date: Wed, 20 Jun 2007 12:56:25 +0000 Subject: [PATCH] git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@618 f3b2605a-c512-4ea7-a41b-209d697bcdaa --- doc/Section_commands.html | 4 ++-- doc/boundary.html | 7 +++---- doc/fix.html | 2 -- doc/pair_gayberne.html | 18 +++++++++--------- doc/run.html | 3 +-- doc/shape.html | 19 ++++++++++--------- 6 files changed, 25 insertions(+), 28 deletions(-) diff --git a/doc/Section_commands.html b/doc/Section_commands.html index db41b972e0..6fb9371d83 100644 --- a/doc/Section_commands.html +++ b/doc/Section_commands.html @@ -322,8 +322,8 @@ description: indentlangevinlineforcemsdmomentumnphnptnpt/asphere nvenve/aspherenve/dipolenve/grannve/noforcenvtnvt/sllodnvt/asphere orient/fccplaneforcepoemspourprintrdfrecenterrigid -setforceshakespringspring/rgspring/selftemp/rescaletmduniaxial -viscousvolume/rescalewall/granwall/lj93wall/lj126wall/reflectwiggle +setforceshakespringspring/rgspring/selftemp/rescaletmdviscous +wall/granwall/lj93wall/lj126wall/reflectwiggle
diff --git a/doc/boundary.html b/doc/boundary.html index 9fe99bb7d6..2c28433a15 100644 --- a/doc/boundary.html +++ b/doc/boundary.html @@ -43,10 +43,9 @@ commands.

The style p means the box is periodic, so that particles interact across the boundary, and they can exit one end of the box and re-enter the other end. A periodic dimension can change in size due to -constant pressure boundary conditions or volume rescaling (see the -fix npt and fix volume/rescale -commands). The p style must be applied to both faces of a -dimension. +constant pressure boundary conditions or box deformation (see the fix +npt and fix deform commands). The p +style must be applied to both faces of a dimension.

The styles f, s, and m mean the box is non-periodic, so that particles do not interact across the boundary and do not move from one diff --git a/doc/fix.html b/doc/fix.html index 27f719bb2a..2245d837f0 100644 --- a/doc/fix.html +++ b/doc/fix.html @@ -103,9 +103,7 @@ made to the old fix via the fix_modify command.

  • fix spring/self - spring from each atom to its origin
  • fix temp/rescale - temperature control by velocity rescaling
  • fix tmd - guide a group of atoms to a new configuration -
  • fix uniaxial - uniaxial straining of system while preserving total volume
  • fix viscous - viscous damping for granular simulations -
  • fix volume/rescale - density control by volume rescaling
  • fix wall/gran - frictional wall(s) for granular simulations
  • fix wall/lj93 - Lennard-Jones 9-3 wall
  • fix wall/lj126 - Lennard-Jones 12-6 wall diff --git a/doc/pair_gayberne.html b/doc/pair_gayberne.html index 6c6beedde8..cee88b992c 100644 --- a/doc/pair_gayberne.html +++ b/doc/pair_gayberne.html @@ -68,12 +68,12 @@ commands:

    The last coefficient is optional. If not specified, the global @@ -94,9 +94,9 @@ above. The "shift yes" option currently cannot be used with this potential to shift energies to 0 at the cutoff due to the anisotropic dependence of the interaction. Angular velocities are all set to zero initially. The Gay-Berne potential does not become isotropic as r -increases (Everaers). The distance of closest approach -approximation becomes less accurate as the shape of ellipsoids becomes -more dissimilar (high aspect ratio particles). +increases (Everaers). The distance-of-closest-approach +approximation used by the code becomes less accurate as the shape of +ellipsoids becomes more dissimilar (high-aspect-ratio particles).

    Related commands:

    diff --git a/doc/run.html b/doc/run.html index e3147f330f..202b0dafde 100644 --- a/doc/run.html +++ b/doc/run.html @@ -70,8 +70,7 @@ performed and you want a fix command that ramps some va of runs and not just a single run. Fixes in this category include fix nvt, fix npt, fix langevin, fix temp/rescale, -fix volume/rescale, fix -deform, and fix indent. The +fix deform, and fix indent. The pair_style soft potential also ramps its coefficients in a similar way.

    diff --git a/doc/shape.html b/doc/shape.html index b3f34f1a5a..e02646058e 100644 --- a/doc/shape.html +++ b/doc/shape.html @@ -48,14 +48,15 @@ longer in x than in y or z and with a circular cross-section in yz. Ellipsoids that are spherical can be defined by setting all 3 shape components the same.

    -

    I can be specified in one of two ways. An explicit numeric value can -be used, as in the 1st example above. Or a wild-card asterik can be -used to set the mass for multiple atom types. This takes the form "*" -or "*n" or "n*" or "m*n". If N = the number of atom types, then an -asterik with no numeric values means all types from 1 to N. A leading -asterik means all types from 1 to n (inclusive). A trailing asterik -means all types from n to N (inclusive). A middle asterik means all -types from m to n (inclusive). +

    The I index can be specified in one of two ways. An explicit numeric +value can be used, as in the 1st example above. Or a wild-card +asterik can be used to set the mass for multiple atom types. This +takes the form "*" or "*n" or "n*" or "m*n". If N = the number of +atom types, then an asterik with no numeric values means all types +from 1 to N. A leading asterik means all types from 1 to n +(inclusive). A trailing asterik means all types from n to N +(inclusive). A middle asterik means all types from m to n +(inclusive).

    A line in a data file that specifies shape uses the same format as the arguments of the shape command in an input script, except that no @@ -63,7 +64,7 @@ wild-card asterik can be used. For example, under the "Shapes" section of a data file, the line that corresponds to the 1st example above would be listed as

    -
    1 1.0 
+
    1 1.0 1.0 1.0 
 
    
 
    Restrictions: