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git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@15133 f3b2605a-c512-4ea7-a41b-209d697bcdaa

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sjplimp 2016-06-07 16:05:14 +00:00
parent 9c5655db7c
commit 27d7c598bf
4 changed files with 20 additions and 14 deletions
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12
doc/html/Section_packages.html
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@ -493,7 +493,7 @@ name links to a sub-section below with more details.</p>
<td>python</td>
<td>lib/python</td>
</tr>
<tr class="row-even"><td><a class="reference internal" href="Section_tools.html#reax"><span class="std std-ref">REAX</span></a></td>
<tr class="row-even"><td><a class="reference internal" href="#reax"><span class="std std-ref">REAX</span></a></td>
<td>ReaxFF potential</td>
<td>Aidan Thompson (Sandia)</td>
<td><a class="reference internal" href="pair_reax.html"><span class="doc">pair_style reax</span></a></td>
@ -1624,7 +1624,7 @@ src/Make.py -h -voronoi&#8221; to see the details.</p>
</td>
</tr>
<tr class="row-odd"><td><a class="reference internal" href="#user-dpd"><span class="std std-ref">USER-DPD</span></a></td>
<td>dissipative particle dynamics (DPD)</td>
<td>reactive dissipative particle dynamics (DPD)</td>
<td>Larentzos &amp; Mattox &amp; Brennan (5)</td>
<td>src/USER-DPD/README</td>
<td>USER/dpd</td>
@ -2058,9 +2058,11 @@ questions.</p>
<span id="user-dpd"></span><h3>4.2.6. USER-DPD package</h3>
<p>Contents: DPD stands for dissipative particle dynamics, This package
implements DPD for isothermal, isoenergetic, isobaric and isenthalpic
conditions. The DPD equations of motion are integrated efficiently
through the Shardlow splitting algorithm. See src/USER-DPD/README for
more details.</p>
conditions. It also has extensions for performing reactive DPD, where
each particle has internal state for multiple species and a coupled
set of chemical reaction ODEs are integrated each timestep. The DPD
equations of motion are integrated efficiently through the Shardlow
splitting algorithm. See src/USER-DPD/README for more details.</p>
<p>Supporting info: /src/USER-DPD/README, <a class="reference internal" href="compute_dpd.html"><span class="doc">compute dpd</span></a>
<a class="reference internal" href="compute_dpd_atom.html"><span class="doc">compute dpd/atom</span></a>
<a class="reference internal" href="fix_eos_table.html"><span class="doc">fix eos/cv</span></a> <a class="reference internal" href="fix_eos_table.html"><span class="doc">fix eos/table</span></a>

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doc/html/_sources/Section_packages.txt
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@ -1521,7 +1521,7 @@ The current list of user-contributed packages is as follows:
+--------------------------------------------+------------------------------------------------+-------------------------------------------------+---------------------------------------------------------+------------------+-------------------------+-------------+
| :ref:`USER-DIFFRACTION <USER-DIFFRACTION>` | virutal x-ray and electron diffraction | Shawn Coleman (ARL) | :doc:`compute xrd <compute_xrd>` | USER/diffraction | - | - |
+--------------------------------------------+------------------------------------------------+-------------------------------------------------+---------------------------------------------------------+------------------+-------------------------+-------------+
| :ref:`USER-DPD <USER-DPD>` | dissipative particle dynamics (DPD) | Larentzos & Mattox & Brennan (5) | src/USER-DPD/README | USER/dpd | - | - |
| :ref:`USER-DPD <USER-DPD>` | reactive dissipative particle dynamics (DPD) | Larentzos & Mattox & Brennan (5) | src/USER-DPD/README | USER/dpd | - | - |
+--------------------------------------------+------------------------------------------------+-------------------------------------------------+---------------------------------------------------------+------------------+-------------------------+-------------+
| :ref:`USER-DRUDE <USER-DRUDE>` | Drude oscillators | Dequidt & Devemy & Padua (3) | :doc:`tutorial <tutorial_drude>` | USER/drude | - | - |
+--------------------------------------------+------------------------------------------------+-------------------------------------------------+---------------------------------------------------------+------------------+-------------------------+-------------+
@ -1779,9 +1779,11 @@ USER-DPD package
Contents: DPD stands for dissipative particle dynamics, This package
implements DPD for isothermal, isoenergetic, isobaric and isenthalpic
conditions. The DPD equations of motion are integrated efficiently
through the Shardlow splitting algorithm. See src/USER-DPD/README for
more details.
conditions. It also has extensions for performing reactive DPD, where
each particle has internal state for multiple species and a coupled
set of chemical reaction ODEs are integrated each timestep. The DPD
equations of motion are integrated efficiently through the Shardlow
splitting algorithm. See src/USER-DPD/README for more details.
Supporting info: /src/USER-DPD/README, :doc:`compute dpd <compute_dpd>`
:doc:`compute dpd/atom <compute_dpd_atom>`

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doc/src/Section_packages.txt
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@ -1144,7 +1144,7 @@ Package, Description, Author(s), Doc page, Example, Pic/movie, Library
"USER-CG-CMM"_#USER-CG-CMM, coarse-graining model, Axel Kohlmeyer (Temple U), "pair_style lj/sdk"_pair_sdk.html, USER/cg-cmm, "cg"_cg, -
"USER-COLVARS"_#USER-COLVARS, collective variables, Fiorin & Henin & Kohlmeyer (2), "fix colvars"_fix_colvars.html, USER/colvars, "colvars"_colvars, lib/colvars
"USER-DIFFRACTION"_#USER-DIFFRACTION, virutal x-ray and electron diffraction, Shawn Coleman (ARL),"compute xrd"_compute_xrd.html, USER/diffraction, -, -
"USER-DPD"_#USER-DPD, dissipative particle dynamics (DPD), Larentzos & Mattox & Brennan (5), src/USER-DPD/README, USER/dpd, -, -
"USER-DPD"_#USER-DPD, reactive dissipative particle dynamics (DPD), Larentzos & Mattox & Brennan (5), src/USER-DPD/README, USER/dpd, -, -
"USER-DRUDE"_#USER-DRUDE, Drude oscillators, Dequidt & Devemy & Padua (3), "tutorial"_tutorial_drude.html, USER/drude, -, -
"USER-EFF"_#USER-EFF, electron force field, Andres Jaramillo-Botero (Caltech), "pair_style eff/cut"_pair_eff.html, USER/eff, "eff"_eff, -
"USER-FEP"_#USER-FEP, free energy perturbation, Agilio Padua (U Blaise Pascal Clermont-Ferrand), "compute fep"_compute_fep.html, USER/fep, -, -
@ -1328,9 +1328,11 @@ USER-DPD package :link(USER-DPD),h5
Contents: DPD stands for dissipative particle dynamics, This package
implements DPD for isothermal, isoenergetic, isobaric and isenthalpic
conditions. The DPD equations of motion are integrated efficiently
through the Shardlow splitting algorithm. See src/USER-DPD/README for
more details.
conditions. It also has extensions for performing reactive DPD, where
each particle has internal state for multiple species and a coupled
set of chemical reaction ODEs are integrated each timestep. The DPD
equations of motion are integrated efficiently through the Shardlow
splitting algorithm. See src/USER-DPD/README for more details.
Supporting info: /src/USER-DPD/README, "compute dpd"_compute_dpd.html
"compute dpd/atom"_compute_dpd_atom.html