''

git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13859 f3b2605a-c512-4ea7-a41b-209d697bcdaa

doc/Section_packages.html

@@ -832,7 +832,7 @@ on how to build LAMMPS with both kinds of auxiliary libraries.</p>
 <tr class="row-odd"><td>USER-SMD</td>
 <td>smoothed Mach dynamics</td>
 <td>Georg Ganzenmuller (EMI)</td>
-<td><a class="reference external" href="USER/smd/SMD_user_guide.pdf">userguide.pdf</a></td>
+<td><a class="reference external" href="PDF/SMD_LAMMPS_userguide.pdf">userguide.pdf</a></td>
 <td>USER/smd</td>
 <td><ul class="first last simple">
 <li></li>
@@ -846,7 +846,7 @@ on how to build LAMMPS with both kinds of auxiliary libraries.</p>
 <tr class="row-even"><td>USER-SPH</td>
 <td>smoothed particle hydrodynamics</td>
 <td>Georg Ganzenmuller (EMI)</td>
-<td><a class="reference external" href="USER/sph/SPH_LAMMPS_userguide.pdf">userguide.pdf</a></td>
+<td><a class="reference external" href="PDF/SPH_LAMMPS_userguide.pdf">userguide.pdf</a></td>
 <td>USER/sph</td>
 <td><a class="reference external" href="http://lammps.sandia.gov/movies.html#sph">sph</a></td>
 <td><ul class="first last simple">
@@ -1268,7 +1268,7 @@ material models.</li>
 <li>Rigid boundary conditions (walls) can be loaded as surface geometries
 from <a href="#id9"><span class="problematic" id="id10">*</span></a>.STL files.</li>
 </ul>
-<p>See the file doc/USER/smd/SMD_user_guide.pdf to get started.</p>
+<p>See the file doc/PDF/SMD_LAMMPS_userguide.pdf to get started.</p>
 <p>There are example scripts for using this package in examples/USER/smd.</p>
 <p>The person who created this package is Georg Ganzenmuller at the
 Fraunhofer-Institute for High-Speed Dynamics, Ernst Mach Institute in
@@ -1289,7 +1289,7 @@ input script</li>
 <li>Output commands to access internal energy and density for dumping and
 thermo output</li>
 </ul>
-<p>See the file doc/USER/sph/SPH_LAMMPS_userguide.pdf to get started.</p>
+<p>See the file doc/PDF/SPH_LAMMPS_userguide.pdf to get started.</p>
 <p>There are example scripts for using this package in examples/USER/sph.</p>
 <p>The person who created this package is Georg Ganzenmuller at the
 Fraunhofer-Institute for High-Speed Dynamics, Ernst Mach Institute in

doc/Section_packages.txt

@@ -132,8 +132,8 @@ USER-QMMM, QM/MM coupling, Axel Kohlmeyer (Temple U), "fix qmmm"_fix_qmmm.html,
 USER-QTB, quantum nuclear effects, Yuan Shen (Stanford), "fix qtb"_fix_qtb.html "fix_qbmsst"_fix_qbmsst.html, qtb, -, -
 USER-QUIP, QUIP/libatoms interface, Albert Bartok-Partay (U Cambridge), "pair_style quip"_pair_quip.html, USER/quip, -, lib/quip
 USER-REAXC, C version of ReaxFF, Metin Aktulga (LBNL), "pair_style reaxc"_pair_reax_c.html, reax, -, -
-USER-SMD, smoothed Mach dynamics, Georg Ganzenmuller (EMI), "userguide.pdf"_USER/smd/SMD_user_guide.pdf, USER/smd, -, -
+USER-SMD, smoothed Mach dynamics, Georg Ganzenmuller (EMI), "userguide.pdf"_PDF/SMD_LAMMPS_userguide.pdf, USER/smd, -, -
-USER-SPH, smoothed particle hydrodynamics, Georg Ganzenmuller (EMI), "userguide.pdf"_USER/sph/SPH_LAMMPS_userguide.pdf, USER/sph, "sph"_sph, -
+USER-SPH, smoothed particle hydrodynamics, Georg Ganzenmuller (EMI), "userguide.pdf"_PDF/SPH_LAMMPS_userguide.pdf, USER/sph, "sph"_sph, -
 :tb(ea=c)
 
 :link(atc,http://lammps.sandia.gov/pictures.html#atc)
@@ -647,7 +647,7 @@ LAMMPS.  Currently, the package has the following features:
 * Rigid boundary conditions (walls) can be loaded as surface geometries 
   from *.STL files.
 
-See the file doc/USER/smd/SMD_user_guide.pdf to get started.
+See the file doc/PDF/SMD_LAMMPS_userguide.pdf to get started.
 
 There are example scripts for using this package in examples/USER/smd.
 
@@ -674,7 +674,7 @@ LAMMPS.  Currently, the package has the following features:
 * Output commands to access internal energy and density for dumping and 
   thermo output
 
-See the file doc/USER/sph/SPH_LAMMPS_userguide.pdf to get started.
+See the file doc/PDF/SPH_LAMMPS_userguide.pdf to get started.
 
 There are example scripts for using this package in examples/USER/sph.
 

doc/Section_start.html

@@ -826,7 +826,8 @@ Examples are the USER-ATC and MEAM packages.</p>
 <p>A few of the lib sub-directories do not include code, but do include
 instructions and sometimes scripts that automate the process of
 downloading the auxiliary library and installing it so LAMMPS can link
-to it.  Examples are the KIM and VORONOI and USER-MOLFILE packages.</p>
+to it.  Examples are the KIM and VORONOI and USER-MOLFILE and USER-SMD
+packages.</p>
 <p>The lib/python directory (for the PYTHON package) contains only a
 choice of Makefile.lammps.* files.  This is because no auxiliary code
 or libraries are needed, only the Python library and other system libs
@@ -865,11 +866,11 @@ included in the link.  Another example are the BLAS and LAPACK
 libraries needed to use the USER-ATC or USER-AWPMD packages.</p>
 <p>For libraries without provided code, the sub-directory README file has
 information on where to download the library and how to build it,
-e.g. lib/voronoi/README.  The README files also describe how you must
+e.g. lib/voronoi/README and lib/smd/README.  The README files also
-either (a) create soft links, via the &#8220;ln&#8221; command, in those
+describe how you must either (a) create soft links, via the &#8220;ln&#8221;
-directories to point to where you built or installed the packages,
+command, in those directories to point to where you built or installed
-or (b) check or edit the Makefile.lammps file in the same directory
+the packages, or (b) check or edit the Makefile.lammps file in the
-to provide that information.</p>
+same directory to provide that information.</p>
 <p>Some of the sub-directories, e.g. lib/voronoi, also have an install.py
 script which can be used to automate the process of
 downloading/building/installing the auxiliary library, and setting the

doc/Section_start.txt

@@ -782,7 +782,8 @@ Examples are the USER-ATC and MEAM packages.
 A few of the lib sub-directories do not include code, but do include
 instructions and sometimes scripts that automate the process of
 downloading the auxiliary library and installing it so LAMMPS can link
-to it.  Examples are the KIM and VORONOI and USER-MOLFILE packages.
+to it.  Examples are the KIM and VORONOI and USER-MOLFILE and USER-SMD
+packages.
 
 The lib/python directory (for the PYTHON package) contains only a
 choice of Makefile.lammps.* files.  This is because no auxiliary code
@@ -827,11 +828,11 @@ libraries needed to use the USER-ATC or USER-AWPMD packages.
 
 For libraries without provided code, the sub-directory README file has
 information on where to download the library and how to build it,
-e.g. lib/voronoi/README.  The README files also describe how you must
+e.g. lib/voronoi/README and lib/smd/README.  The README files also
-either (a) create soft links, via the "ln" command, in those
+describe how you must either (a) create soft links, via the "ln"
-directories to point to where you built or installed the packages,
+command, in those directories to point to where you built or installed
-or (b) check or edit the Makefile.lammps file in the same directory
+the packages, or (b) check or edit the Makefile.lammps file in the
-to provide that information.
+same directory to provide that information.
 
 Some of the sub-directories, e.g. lib/voronoi, also have an install.py
 script which can be used to automate the process of