574e4067dc
This is the first step for moving the documentation format from *.txt to the *.rst format. In the last years we've been automatically converting txt files from Steve's markup into RST to generate the documentation pages via Sphinx. The decision has now been made to fully migrate to RST and avoid the conversion in the future. This will enable us to fully use RST and Sphinx to improve the documentation. For the intermediate period, while there are still pending PRs with documentation changes, we will keep both source files and update the RST files accordingly.
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1.7 KiB
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44 lines
1.7 KiB
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Visualize LAMMPS snapshots
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LAMMPS itself does not do visualization, but snapshots from LAMMPS
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simulations can be visualized (and analyzed) in a variety of ways.
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Mention dump image and dump movie.
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LAMMPS snapshots are created by the :doc:`dump <dump>` command which can
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create files in several formats. The native LAMMPS dump format is a
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text file (see "dump atom" or "dump custom") which can be visualized
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by several popular visualization tools. The :doc:`dump image <dump_image>` and :doc:`dump movie <dump_image>` styles can
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output internally rendered images and convert a sequence of them to a
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movie during the MD run. Several programs included with LAMMPS as
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auxiliary tools can convert between LAMMPS format files and other
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formats. See the :doc:`Tools <Tools>` doc page for details.
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A Python-based toolkit distributed by our group can read native LAMMPS
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dump files, including custom dump files with additional columns of
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user-specified atom information, and convert them to various formats
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or pipe them into visualization software directly. See the `Pizza.py WWW site <pizza_>`_ for details. Specifically, Pizza.py can convert
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LAMMPS dump files into PDB, XYZ, `Ensight <ensight_>`_, and VTK formats.
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Pizza.py can pipe LAMMPS dump files directly into the Raster3d and
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RasMol visualization programs. Pizza.py has tools that do interactive
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3d OpenGL visualization and one that creates SVG images of dump file
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snapshots.
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.. _pizza: http://www.sandia.gov/~sjplimp/pizza.html
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.. _ensight: http://www.ensight.com
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.. _atomeye: http://mt.seas.upenn.edu/Archive/Graphics/A
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.. _lws: http://lammps.sandia.gov
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.. _ld: Manual.html
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.. _lc: Commands_all.html
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