removal of doc/html/_sources and minor sync with SVN

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<h1>LAMMPS Documentation</h1>

<div class="section" id="aug-2016-version">

<h2>20 Aug 2016 version</h2>

<h2>23 Aug 2016 version</h2>

</div>

<div class="section" id="version-info">

<h2>Version info:</h2>

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LAMMPS Documentation

====================

20 Aug 2016 version

-------------------

Version info:

-------------

The LAMMPS "version" is the date when it was released, such as 1 May

2010. LAMMPS is updated continuously.  Whenever we fix a bug or add a

feature, we release it immediately, and post a notice on `this page of the WWW site <bug_>`_.  Each dated copy of LAMMPS contains all the

features and bug-fixes up to and including that version date. The

version date is printed to the screen and logfile every time you run

LAMMPS. It is also in the file src/version.h and in the LAMMPS

directory name created when you unpack a tarball, and at the top of

the first page of the manual (this page).

* If you browse the HTML doc pages on the LAMMPS WWW site, they always

  describe the most current version of LAMMPS.

* If you browse the HTML doc pages included in your tarball, they

  describe the version you have.

* The `PDF file <Manual.pdf>`_ on the WWW site or in the tarball is updated

  about once per month.  This is because it is large, and we don't want

  it to be part of every patch.

* There is also a `Developer.pdf <Developer.pdf>`_ file in the doc

  directory, which describes the internal structure and algorithms of

  LAMMPS.

LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel

Simulator.

LAMMPS is a classical molecular dynamics simulation code designed to

run efficiently on parallel computers.  It was developed at Sandia

National Laboratories, a US Department of Energy facility, with

funding from the DOE.  It is an open-source code, distributed freely

under the terms of the GNU Public License (GPL).

The primary developers of LAMMPS are `Steve Plimpton <sjp_>`_, Aidan

Thompson, and Paul Crozier who can be contacted at

sjplimp,athomps,pscrozi at sandia.gov.  The `LAMMPS WWW Site <lws_>`_ at

http://lammps.sandia.gov has more information about the code and its

uses.

.. _bug: http://lammps.sandia.gov/bug.html

.. _sjp: http://www.sandia.gov/~sjplimp

----------

The LAMMPS documentation is organized into the following sections.  If

you find errors or omissions in this manual or have suggestions for

useful information to add, please send an email to the developers so

we can improve the LAMMPS documentation.

Once you are familiar with LAMMPS, you may want to bookmark :ref:`this page <comm>` at Section_commands.html#comm since

it gives quick access to documentation for all LAMMPS commands.

`PDF file <Manual.pdf>`_ of the entire manual, generated by

`htmldoc <http://freecode.com/projects/htmldoc>`_

.. toctree::

   :maxdepth: 2

   :numbered:

   Section_intro

   Section_start

   Section_commands

   Section_packages

   Section_accelerate

   Section_howto

   Section_example

   Section_perf

   Section_tools

   Section_modify

   Section_python

   Section_errors

   Section_history

Indices and tables

==================

* :ref:`genindex`

* :ref:`search`

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.. _lws: http://lammps.sandia.gov

.. _ld: Manual.html

.. _lc: Section_commands.html#comm