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Extending and Modifying LAMMPS Writing Your Own Source Code

You're reading from   Extending and Modifying LAMMPS Writing Your Own Source Code A pragmatic guide to extending LAMMPS as per custom simulation requirements

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Product type Paperback
Published in Feb 2021
Publisher Packt
ISBN-13 9781800562264
Length 394 pages
Edition 1st Edition
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Authors (2):
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Jichen Li Jichen Li
Author Profile Icon Jichen Li
Jichen Li
Dr. Shafat Mubin Dr. Shafat Mubin
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Dr. Shafat Mubin
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Table of Contents (21) Chapters Close

Preface 1. Section 1: Getting Started with LAMMPS
2. Chapter 1: MD Theory and Simulation Practices FREE CHAPTER 3. Chapter 2: LAMMPS Syntax and Source Code Hierarchy 4. Section 2: Understanding the Source Code Structure
5. Chapter 3: Source Code Structure and Stages of Execution 6. Chapter 4: Accessing Information by Variables, Arrays, and Methods 7. Chapter 5: Understanding Pair Styles 8. Chapter 6: Understanding Computes 9. Chapter 7: Understanding Fixes 10. Chapter 8: Exploring Supporting Classes 11. Section 3: Modifying the Source Code
12. Chapter 9: Modifying Pair Potentials 13. Chapter 10: Modifying Force Applications 14. Chapter 11: Modifying Thermostats 15. Assessments 16. Other Books You May Enjoy Appendix A: Building LAMMPS with CMake 1. Appendix B: Debugging Programs 2. Appendix C: Getting Familiar with MPI 3. Appendix D: Compatibility with Version 29Oct20

Reviewing the table potential

In this section, we will learn about the various methods that implement the pair table potential.

The table pair potential described by pair_table.cpp and pair_table.h reads a file containing potential and force values tabulated for a list of data points corresponding to separations between atoms. When the force or potential at a particular separation is required, one or more of the data points in the file closest to the required separation are used to interpolate the force and potential.

The following LAMMPS inputs script commands are used to implement this pair style:

pair_style table TABLE_STYLE N KEYWORD
pair_coeff  TYPE1 TYPE2   FILE_NAME  VARIABLE  CUTOFFs

From the preceding code, TABLE_STYLE has to be one of the styles mentioned in the LAMMPS manual (LINEAR, LOOKUP, SPLINE, or BITMAP), and N is the number of data points and KEYWORD is an optional entry for long-range solvers described in the...

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