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git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13792 f3b2605a-c512-4ea7-a41b-209d697bcdaa
This commit is contained in:
sjplimp 2015-07-30 00:05:24 +00:00
parent bbb618ccc8
commit 544e55c80a
9 changed files with 21 additions and 21 deletions
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6
doc/Manual.txt
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@ -85,7 +85,7 @@ it gives quick access to documentation for all LAMMPS commands.
.. toctree::
:maxdepth: 2
:numbered: // comment
:numbered:
Section_intro
Section_start
@ -105,8 +105,8 @@ it gives quick access to documentation for all LAMMPS commands.
Indices and tables
==================
* :ref:`genindex` // comment
* :ref:`search` // comment
* :ref:`genindex`
* :ref:`search`
END_RST -->

8
doc/Section_python.html
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@ -860,7 +860,7 @@ variables that have to match the VMD installation on your system.</p>
source code for individual scripts for comments about what they do.</p>
<p>Here are screenshots of the vizplotgui_tool.py script in action for
different visualization package options. Click to see larger images:</p>
<a data-lightbox="group-a67dcb54-45e3-4f9a-8419-cc49899f7dae"
<a data-lightbox="group-d489478e-39a5-4946-aa41-df734694ec53"
href="_images/screenshot_gl.jpg"
class=""
title=""
@ -870,7 +870,7 @@ different visualization package options. Click to see larger images:</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-87dc8228-44a3-43a0-b863-b23a8578b25d"
</a><a data-lightbox="group-cb9d008f-83b2-45c5-995b-5fee2e9e3940"
href="_images/screenshot_atomeye.jpg"
class=""
title=""
@ -880,7 +880,7 @@ different visualization package options. Click to see larger images:</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-ff85a8ae-f8ee-48ad-a62c-3ece7d383afa"
</a><a data-lightbox="group-aed8166f-776b-474a-b333-8f0bd4dca72c"
href="_images/screenshot_pymol.jpg"
class=""
title=""
@ -890,7 +890,7 @@ different visualization package options. Click to see larger images:</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-c5001468-50f3-4dc4-8a87-c316d0e65ce3"
</a><a data-lightbox="group-737a547b-898b-4ee0-9f0f-b0c33c90e62d"
href="_images/screenshot_vmd.jpg"
class=""
title=""

6
doc/balance.html
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@ -265,7 +265,7 @@ the processor that owns them. The leftmost diagram is the default
partitioning of the simulation box across processors (one sub-box for
each of 16 processors); the middle diagram is after a &#8220;grid&#8221; method
has been applied.</p>
<a data-lightbox="group-f46430e3-ddd0-46b0-9b56-e7b153a379e5"
<a data-lightbox="group-e2964598-028d-4534-826b-f563dc0c3c21"
href="_images/balance_uniform.jpg"
class=""
title=""
@ -275,7 +275,7 @@ has been applied.</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-135e054c-9dc4-4e50-a8b8-97c01c750440"
</a><a data-lightbox="group-470f360d-5401-4045-afa2-c973c85289ed"
href="_images/balance_nonuniform.jpg"
class=""
title=""
@ -285,7 +285,7 @@ has been applied.</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-27bcc7c7-7673-4a3d-a0e7-728a97b5f0d3"
</a><a data-lightbox="group-c172d1d1-f9f3-49ec-8ae6-1dd443966f5e"
href="_images/balance_rcb.jpg"
class=""
title=""

4
doc/compute_saed.html
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@ -182,7 +182,7 @@ position of each atom, fj are atomic scattering factors.</p>
reciprocal lattice nodes. The mesh spacing is defined either (a) by
the entire simulation domain or (b) manually using selected values as
shown in the 2D diagram below.</p>
<a data-lightbox="group-81e30437-a65f-4903-a703-1275020b28a5"
<a data-lightbox="group-9d22982d-8353-4af6-b995-7b9cb0ec8e84"
href="_images/saed_mesh.jpg"
class=""
title=""
@ -219,7 +219,7 @@ intersecting Ewald sphere. Diffraction intensities will only be
computed at the intersection of the reciprocal lattice mesh and a
<em>dR_Ewald</em> thick surface of the Ewald sphere. See the example 3D
intestiety data and the intersection of a [010] zone axis in the below image.</p>
<a data-lightbox="group-55263cba-bf52-4fac-b629-db0aad4e6ff4"
<a data-lightbox="group-e805326d-81ce-4dc3-96f0-92fea55fcf75"
href="_images/saed_ewald_intersect.jpg"
class=""
title=""

2
doc/compute_xrd.html
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@ -185,7 +185,7 @@ the optional <em>LP</em> keyword.</p>
reciprocal lattice nodes. The mesh spacing is defined either (a)
by the entire simulation domain or (b) manually using selected values as
shown in the 2D diagram below.</p>
<a data-lightbox="group-5fce1a9a-5d42-4b55-8345-d4303e811096"
<a data-lightbox="group-af031f59-75e1-478b-bdd8-836a4375d765"
href="_images/xrd_mesh.jpg"
class=""
title=""

2
doc/create_atoms.html
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@ -341,7 +341,7 @@ variable v equal &quot;(0.2*v_y*ylat * cos(v_xx/xlat * 2.0*PI*4.0/v_x) +
create_atoms 1 box var v set x xx set y yy
</pre></div>
</div>
<a data-lightbox="group-144e62e0-7a3c-4f96-807f-10f2484656bd"
<a data-lightbox="group-3a0414c2-3deb-4050-a25e-40a81a6ee01f"
href="_images/sinusoid.jpg"
class=""
title=""

4
doc/dump_image.html
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@ -220,7 +220,7 @@ from an existing dump file, and using these dump commands in the rerun
script to generate the images/movie.</p>
<p>Here are two sample images, rendered as 1024x1024 JPEG files. Click
to see the full-size images:</p>
<DIV ALIGN=center><a data-lightbox="group-b09de252-9c83-48ab-b72a-9e2bbfeacedd"
<DIV ALIGN=center><a data-lightbox="group-e991f56e-f1e0-422f-b7b4-39dd2059c177"
href="_images/dump1.jpg"
class=""
title=""
@ -230,7 +230,7 @@ to see the full-size images:</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-de408a9e-1cab-4f64-9df9-cc27703973f0"
</a><a data-lightbox="group-b6134354-0c6f-4ab9-b05f-698e9af146f2"
href="_images/dump2.jpg"
class=""
title=""

6
doc/fix_balance.html
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@ -237,7 +237,7 @@ that owns them. The leftmost diagram is the default partitioning of
the simulation box across processors (one sub-box for each of 16
processors); the middle diagram is after a &#8220;grid&#8221; method has been
applied.</p>
<a data-lightbox="group-06065175-1b3a-45f6-b10e-9bd59cc9b4d1"
<a data-lightbox="group-5858f7eb-df45-46c3-bcdc-5c1ca6eb3a05"
href="_images/balance_uniform.jpg"
class=""
title=""
@ -247,7 +247,7 @@ applied.</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-0ff3e7d6-c5c4-409b-99af-1b06ba6008e8"
</a><a data-lightbox="group-ec0fc6bd-5c66-4b42-9483-5a38c0a7cbc1"
href="_images/balance_nonuniform.jpg"
class=""
title=""
@ -257,7 +257,7 @@ applied.</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-cde90f44-25ef-4c63-8e26-cd33e3d51a9e"
</a><a data-lightbox="group-72ca979a-6909-4317-9cd2-3d1cb2d8cd2a"
href="_images/balance_rcb.jpg"
class=""
title=""

4
doc/neb.html
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@ -479,7 +479,7 @@ barrier.</p>
neb_combine.py script run on the dump files produced by the two
example input scripts in examples/neb. Click on them to see a larger
image.</p>
<a data-lightbox="group-2bd76f16-ac36-4553-b3fe-9324924fdf6b"
<a data-lightbox="group-b0f8ddb5-eab8-4e98-8121-4cabe31e66a9"
href="_images/hop1.jpg"
class=""
title=""
@ -489,7 +489,7 @@ image.</p>
width="25%"
height="auto"
alt=""/>
</a><a data-lightbox="group-6c0e697f-940f-40e8-ad60-f43b343bf1a4"
</a><a data-lightbox="group-fb508994-01ff-4b9d-a2b2-703bef26e049"
href="_images/hop2.jpg"
class=""
title=""